Works (106)

Updated: May 15th, 2024 04:44

2024 journal article

Environmental drivers and cryptic biodiversity hotspots define endophytes in Earth's largest terrestrial biome

CURRENT BIOLOGY, 34(5).

By: . Jana M. U'Ren*, S. Oita*, F. Lutzoni*, J. Miadlikowska*, B. Ball*, I. Carbone n, G. May*, N. Zimmerman* ...

Sources: Web Of Science, NC State University Libraries
Added: May 7, 2024

2023 journal article

An open-access T-BAS phylogeny for emerging Phytophthora species

PLOS ONE, 18(4).

By: A. Coomber n, A. Saville n, I. Carbone n & J. Ristaino n

Ed(s): J. Blair

MeSH headings : Phylogeny; Phytophthora / genetics; Genotype
TL;DR: This phylogenetic resource will allow data sharing among research groups and the database will enable the global Phytophthora community to upload sequences and determine the phylogenetic placement of an isolate within the larger phylogeny and to download sequence data and metadata. (via Semantic Scholar)
UN Sustainable Development Goal Categories
15. Life on Land (OpenAlex)
Sources: ORCID, Web Of Science, NC State University Libraries
Added: April 4, 2023

2023 article

Ancient Rapid Radiation Explains Most Conflicts Among Gene Trees and Well-Supported Phylogenomic Trees of Nostocalean Cyanobacteria

Hoz, C. J., Magain, N., Piatkowski, B., Cornet, L., Dal Forno, M., Carbone, I., … Lutzoni, F. (2023, February 24). (C. Lemus-Solis, Ed.). SYSTEMATIC BIOLOGY, Vol. 2.

Ed(s): C. Lemus-Solis

MeSH headings : Phylogeny; Genome; Biological Evolution; Prokaryotic Cells; Cyanobacteria / genetics
TL;DR: It is proposed that polytomies may be the most appropriate phylogenetic representation of these rapid radiations that are part of anomaly zones, especially when all possible genomic markers have been considered to infer these phylogenies. (via Semantic Scholar)
UN Sustainable Development Goal Categories
15. Life on Land (Web of Science; OpenAlex)
Sources: Web Of Science, NC State University Libraries, ORCID
Added: May 15, 2023

2023 journal article

Cassava begomovirus species diversity changes during plant vegetative cycles

Frontiers in Microbiology, 14.

By: A. Dye n, B. Muga*, J. Mwangi*, J. Hoyer*, V. Ly n, Y. Rosado n, W. Sharpee n, B. Mware* ...

author keywords: plant virus; Cassava (Manihot esculenta); vegetative (asexual) propagation; vector transmission; whitefly (Bemisia tabaci)
TL;DR: The results suggest that whitefly transmission and vegetative transmission lead to different outcomes for ACMV and EACMV-like viruses. (via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
Sources: Web Of Science, NC State University Libraries, Crossref
Added: July 3, 2023

2023 journal article

Towards a nomenclatural clarification of the <i>Peltigera ponojensis/monticola</i> clade including metagenomic sequencing of type material and the introduction of <i>P. globulata</i> Miadl. & Magain sp. nov.

Towards a nomenclatural clarification of the Peltigera ponojensis/monticola clade including metagenomic sequencing of type material and the introduction of P. globulata Miadl. & Magain sp. nov. LICHENOLOGIST, 55(5), 315–324.

author keywords: Andean lichens; cyanolichens; new species; species complex; taxonomy
TL;DR: The hypervariable region of ITS1 (ITS1-HR), which is in general highly variable among species of section Peltigera, does not have diagnostic value for species identification within the P. ponojensis/monticola complex. (via Semantic Scholar)
UN Sustainable Development Goal Categories
15. Life on Land (Web of Science)
Sources: Web Of Science, NC State University Libraries, ORCID
Added: October 30, 2023

2022 journal article

Adaptation of Phytophthora nicotianae to Multiple Sources of Partial Resistance in Tobacco

PLANT DISEASE, 106(3), 906–917.

By: J. Jin n, K. McCorkle n, V. Cornish n, I. Carbone n, R. Lewis n & H. Shew n

author keywords: adaptation; ddRADseq; host resistance; Nicotiana rustica; Phytophthora nicotianae; tobacco
MeSH headings : Genotype; Phytophthora / genetics; Plant Diseases / genetics; Quantitative Trait Loci / genetics; Tobacco / genetics
TL;DR: The rapid adaptation to Wz resistance and the gradual adaptation to other QTLs highlights the need to study the nature of WZ resistance and for conducting field studies on efficacy of resistance-gene rotation for disease management. (via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being (OpenAlex)
Sources: Web Of Science, NC State University Libraries
Added: July 26, 2022

2022 journal article

An experimental strategy for preparing circular ssDNA virus genomes for next-generation sequencing

JOURNAL OF VIROLOGICAL METHODS, 300.

By: C. Aimone n, J. Hoyer*, A. Dye n, D. Deppong n, S. Duffy*, I. Carbone n, L. Hanley-Bowdoin n

author keywords: Phi29; EquiPhi29; MiSeq; Whiteflies; Viral DNA sequencing
MeSH headings : DNA Viruses / genetics; DNA, Circular / genetics; DNA, Viral / genetics; Genome, Viral; High-Throughput Nucleotide Sequencing
TL;DR: An improved protocol for the enhanced amplification and enrichment of begomovirus DNA for use in next generation sequencing of the viral genomes is presented and can be used to examine the viral DNA as it moves from host to vector, thus producing valuable information for viral DNA population studies. (via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
Sources: Web Of Science, NC State University Libraries, ORCID
Added: March 7, 2022

2022 journal article

Asymmetrical lineage introgression and recombination in populations of Aspergillus flavus: Implications for biological control

PLOS ONE, 17(10).

By: M. Molo n, J. White n, V. Cornish n, R. Gell n, O. Baars n, R. Singh n, M. Carbone n, T. Isakeit* ...

Ed(s): W. Nierman

MeSH headings : Aspergillus flavus / genetics; Aflatoxins / genetics; Biological Control Agents; Zea mays / genetics; Zea mays / microbiology; Recombination, Genetic
Sources: Web Of Science, NC State University Libraries, ORCID
Added: October 28, 2022

2022 article

Dataset for transcriptomic profiles associated with development of sexual structures in Aspergillus flavus

Luis, J. M., Carbone, I., Mack, B. M., Lebar, M. D., Cary, J. W., Gilbert, M. K., … Ojiambo, P. S. (2022, June). DATA IN BRIEF, Vol. 42.

By: J. Luis n, I. Carbone n, B. Mack*, M. Lebar*, J. Cary*, M. Gilbert*, D. Bhatnagar*, C. Wientjes* ...

author keywords: Fertility; Sclerotia; Sexual development; Transcriptional analysis
TL;DR: Transcriptomic datasets included in the research article entitled, “Development of sexual structures influences metabolomic and transcriptomic profiles in Aspergillus flavus”, which utilized transcriptomics to identify possible genes and gene clusters associated with sexual reproduction and fertilization in A. flavus are presented. (via Semantic Scholar)
Sources: Web Of Science, NC State University Libraries
Added: April 25, 2022

2022 journal article

Development of sexual structures influences metabolomic and transcriptomic profiles in Aspergillus flavus

FUNGAL BIOLOGY, 126(3), 187–200.

By: J. Luis n, I. Carbone n, B. Mack*, M. Lebar*, J. Cary*, M. Gilbert*, D. Bhatnagar*, C. Wientjes* ...

author keywords: Fertility; Sclerotia; Secondary metabolites; Sexual development; Transcriptional analysis
MeSH headings : Aflatoxins / metabolism; Aspergillus flavus; Gene Expression Profiling; Metabolomics; Reproduction / genetics; Transcriptome
TL;DR: The results broaden knowledge of the biochemical and transcriptional processes during sexual development in A. flavus and show that successful mating between compatible strains may result in relatively high or low numbers of ascocarps being produced. (via Semantic Scholar)
Sources: Web Of Science, NC State University Libraries
Added: March 14, 2022

2022 article

Gene Flow of Phytophthora infestans Between Refuse Piles, and Organic and Conventional Potato Fields in Southern Flevoland, The Netherlands

Hu, C.-H., Govers, F., Carbone, I., & Ristaino, J. B. (2022, November 5). POTATO RESEARCH, Vol. 11.

By: C. Hu n, F. Govers*, I. Carbone n & J. Ristaino n

author keywords: Gene flow; Late blight; Potatoes; Ras gene; Rpl14; Rpl5; tRNAs and cox1
TL;DR: Nucleotide diversity and population mean mutation rates were higher in samples from refuse piles and organic fields than conventional fields for both nuclear and mitochondrial loci and migration analysis suggested that gene flow may have occurred first from conventional potato fields to organic fields and then to refuse piles. (via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger (OpenAlex)
Sources: ORCID, Web Of Science, NC State University Libraries
Added: November 5, 2022

2022 article

Microbial Diversity in Four Rhizocompartments (Bulk Soil, Rhizosphere, Rhizoplane, and Endosphere) of Four Winter Wheat Varieties at the Fully Emerged Flag Leaf Growth Stage

Ahmad, J., Zervas, A., Ellegaard-Jensen, L., Hennessy, R. C., Carbone, I., Cornish, V., … Nicolaisen, M. H. (2022, October 6). MICROBIOLOGY RESOURCE ANNOUNCEMENTS, Vol. 10.

TL;DR: Results of 16S rRNA amplicon sequencing from four rhizocompartments for four wheat cultivars grown under controlled conditions and sampled after flag leaf emergence demonstrate differences in microbial communities according to rhizcompartment. (via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
Sources: Web Of Science, NC State University Libraries
Added: October 24, 2022

2022 journal article

Rapid Multilocus Adaptation of Clonal Cabbage Leaf Curl Virus Populations to Arabidopsis thaliana

PHYTOBIOMES JOURNAL, 6(3), 227–235.

By: J. Hoyer*, O. Wilkins n, A. Munshi n, E. Wiese n, D. Dubey*, S. Renard n, K. Mortensen n, A. Dye n ...

author keywords: begomovirus mutation; genomics; molecular biology; plant pathology; rapid adaptation; virology; within-host population variability
UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
Sources: Web Of Science, NC State University Libraries
Added: April 11, 2023

2022 journal article

Recombination-aware phylogeographic inference using the structured coalescent with ancestral recombination

PLOS COMPUTATIONAL BIOLOGY, 18(8).

By: F. Guo n, I. Carbone n & D. Rasmussen n

MeSH headings : Genetics, Population; Genome; Humans; Models, Genetic; Phylogeography; Population Density; Recombination, Genetic / genetics
TL;DR: The SCAR model allows us to infer how the migration history of sampled individuals varies across the genome from ARGs, and improves estimation of key population genetic parameters such as population sizes, recombination rates and migration rates. (via Semantic Scholar)
UN Sustainable Development Goal Categories
10. Reduced Inequalities (OpenAlex)
Sources: Web Of Science, NC State University Libraries
Added: March 6, 2023

2021 journal article

Climate and seasonality drive the richness and composition of tropical fungal endophytes at a landscape scale

COMMUNICATIONS BIOLOGY, 4(1).

By: S. Oita*, A. Ibanez, F. Lutzoni*, J. Miadlikowska*, J. Geml*, L. Lewis*, E. Hom*, I. Carbone n, . Jana M. U'Ren*, A. Arnold*

MeSH headings : Biota; Endophytes / classification; Fungi / classification; Plant Leaves / microbiology; Rainforest; Seasons; Symbiosis; Trees / microbiology; Tropical Climate
TL;DR: It is demonstrated that endophyte richness varies negatively with temperature seasonality, which highlights the vital role of climate-related factors in shaping the hyperdiversity of these important and little-known symbionts of the trees that, in turn, form the foundations of tropical forest biodiversity. (via Semantic Scholar)
UN Sustainable Development Goal Categories
13. Climate Action (OpenAlex)
Sources: Web Of Science, NC State University Libraries
Added: April 5, 2021

2021 journal article

Genome Resources for Seven Fungal Isolates That Cause Dollar Spot Disease in Turfgrass, Including Clarireedia jacksonii and C. monteithiana

PLANT DISEASE, 105(3), 691–694.

By: J. Crouch*, L. Beirn*, M. Boehm*, I. Carbone n, B. Clarke*, J. Kerns n, M. Malapi-Wight*, T. Mitchell*, R. Venu*, L. Tredway n

author keywords: Agrostis stolonifera; Cynodon dactylon; dollar spot; Festuca rubra; fungi; Paspalum vaginatum; pathogen diversity; Rutstroemiaceae; Sclerotinia homoeocarpa; turf; turfgrass
MeSH headings : Agrostis; Ascomycota / genetics; Host-Pathogen Interactions; Poaceae
Sources: Web Of Science, NC State University Libraries
Added: July 6, 2021

2021 journal article

Methodological Approaches Frame Insights into Endophyte Richness and Community Composition

MICROBIAL ECOLOGY, 82(1), 21–34.

By: S. Oita*, J. Carey*, I. Kline*, A. Ibanez*, N. Yang*, E. Hom*, I. Carbone n, . Jana M. U'Ren*, A. Arnold*

author keywords: Ascomycota; Diversity; Illumina; Media; Metabarcoding; Magnoliophyta; Pinophyta; Pteridophyta
MeSH headings : Endophytes / genetics; Fungi / genetics; Phylogeny; Plant Leaves; Plants
TL;DR: Examination of endophytes in a temperate plant community shows that it is likely more important to sample more host species, rather than sampling fewer species more intensively, to quantify endophyte diversity in given locations, with the richest insights intoendophyte ecology emerging when culturing and NGS are paired. (via Semantic Scholar)
UN Sustainable Development Goal Categories
15. Life on Land (OpenAlex)
Sources: Web Of Science, NC State University Libraries
Added: February 1, 2021

2021 journal article

Parasites, niche modification and the host microbiome: A field survey of multiple parasites

MOLECULAR ECOLOGY, 30(10), 2404–2416.

author keywords: biotic interactions; disease ecology; metabarcoding; microbiome; mycobiome; niche modification
MeSH headings : Animals; Host-Parasite Interactions; Microbiota / genetics; Mycobiome; Parasites / genetics; Parasitic Diseases
TL;DR: This work investigated how diversity and composition of the fungal microbiome associate with natural infection by fungal parasites with different feeding strategies and hypothesized that parasites that more strongly modify niches available within a host will be associated with greater changes in microbiome Diversity and composition. (via Semantic Scholar)
UN Sustainable Development Goal Categories
15. Life on Land (OpenAlex)
Sources: Web Of Science, NC State University Libraries
Added: May 17, 2021

2021 journal article

Population diversity of cassava mosaic begomoviruses increases over the course of serial vegetative propagation

Journal of General Virology, 102(7).

author keywords: cassava mosaic begomoviruses; vegetative propagation; viral diversity
MeSH headings : Base Sequence; Begomovirus / genetics; Begomovirus / physiology; Codon; DNA, Intergenic; DNA, Viral / genetics; Evolution, Molecular; Genetic Variation; Genome, Viral; Manihot / growth & development; Manihot / virology; Mutation; Plant Diseases / virology; Polymorphism, Single Nucleotide; Satellite Viruses / genetics; Satellite Viruses / physiology; Sequence Deletion; Temperature; Viral Proteins / genetics
TL;DR: It is found that vegetative propagation had a significant effect on viral nucleotide diversity, while temperature and a satellite DNA did not have measurable impacts in this study. (via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
Sources: Web Of Science, NC State University Libraries, ORCID, Crossref
Added: August 16, 2021

2020 journal article

Characterization of morphological changes within stromata during sexual reproduction inAspergillus flavus

MYCOLOGIA, 112(5), 908–920.

author keywords: Ascocarp; ascospore; morphogenesis; sclerotium; stroma
MeSH headings : Aspergillus flavus / cytology; Aspergillus flavus / genetics; Aspergillus flavus / growth & development; Fertility; Food Contamination; Fruiting Bodies, Fungal / cytology; Fruiting Bodies, Fungal / genetics; Fruiting Bodies, Fungal / growth & development; Genetic Variation; Genotype; Humans; Mycotoxins; Plant Development / genetics; Plant Development / physiology; Reproduction / genetics; Reproduction / physiology; Spores, Fungal / cytology; Spores, Fungal / genetics; Spores, Fungal / growth & development
TL;DR: Observations broaden knowledge of early events during sexual reproduction and suggest that hyphae from the conidium-producing strain may be involved in the early stages of sexual reproduction in A. flavus. (via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger (OpenAlex)
Sources: Web Of Science, NC State University Libraries
Added: September 7, 2020

2019 journal article

A Response to the Letter to the Editor from Ortega-Beltran and Bandyopadhyay

Agronomy Journal, 111(5), 2629–2631.

By: M. Molo, R. Heiniger, L. Boerema & I. Carbone

Source: NC State University Libraries
Added: February 6, 2021

2019 journal article

Biocontrol Strains Differentially Shift the Genetic Structure of Indigenous Soil Populations of Aspergillus flavus

Frontiers in Microbiology, 10.

By: M. Lewis n, I. Carbone n, J. Luis n, G. Payne n, K. Bowen*, A. Hagan*, R. Kemerait*, R. Heiniger n, P. Ojiambo n

author keywords: aflatoxin; Aspergillus section Flavi; biological control; lineage; mating type
TL;DR: Phylogenetic analysis showed that Afla-Guard was more effective than AF36 in shifting the indigenous soil populations of A. flavus toward the non-toxigenic or low aflatoxin producing IB lineage and patristic distance analysis revealed phylogenetic incongruency among single locus phylogenies which suggests ongoing genetic exchange and recombination. (via Semantic Scholar)
UN Sustainable Development Goal Categories
15. Life on Land (OpenAlex)
Sources: Web Of Science, NC State University Libraries, Crossref, ORCID
Added: August 12, 2019

2019 journal article

HPLC quantitation of aflatoxin B1 from fungal mycelium culture

Journal of Microbiological Methods, 158, 14–17.

By: R. Gell n & I. Carbone n

author keywords: Aspergillus flavus; Aflatoxin B-1; HPLC; Mycotoxins
MeSH headings : Aflatoxin B1 / analysis; Aspergillus flavus / chemistry; Chromatography, High Pressure Liquid; Mycelium / chemistry
TL;DR: This work provides details of a method for preparation and quantitation of aflatoxin B1 from fungal cultures that satisfy the needs of population studies. (via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger (OpenAlex)
Sources: Web Of Science, NC State University Libraries, Crossref
Added: April 2, 2019

2019 journal article

Host availability drives distributions of fungal endophytes in the imperilled boreal realm

Nature Ecology & Evolution, 3(10), 1430–1437.

By: J. U’Ren*, F. Lutzoni*, J. Miadlikowska*, N. Zimmerman*, I. Carbone n, G. May*, A. Arnold*

MeSH headings : Ecosystem; Endophytes; North America; Phylogeny; Symbiosis
TL;DR: Overall, the distributions of endophytes are directly linked to the availability of compatible hosts, highlighting the role of biotic interactions in shaping fungal communities across large spatial scales, and the threat that climate change poses to biological diversity and function in the imperilled boreal realm. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Sources: Web Of Science, NC State University Libraries, Crossref
Added: October 21, 2019

2019 journal article

Identification and characterization of Septoria steviae as the causal agent of Septoria leaf spot disease of stevia in North Carolina

Mycologia, 111(3), 456–465.

By: A. Koehler*, M. Larkin n, L. Rogers n, I. Carbone n, M. Cubeta n & H. Shew n

author keywords: Ascomycete; morphological characterization; phylogenetics; Stevia rebaudiana
MeSH headings : Ascomycota / genetics; Ascomycota / pathogenicity; DNA, Fungal / genetics; DNA, Ribosomal Spacer / genetics; North Carolina; Phylogeny; Plant Diseases / microbiology; Plant Leaves / microbiology; RNA, Ribosomal, 5.8S / genetics; Sequence Analysis, DNA; Stevia / microbiology
TL;DR: This study represents the first genetic characterization of S. steviae in the United States and provides an experimental framework to elucidate the genetic diversity and disease ecology of field populations of S.'svia rebaudiana. (via Semantic Scholar)
UN Sustainable Development Goal Categories
15. Life on Land (OpenAlex)
Sources: Web Of Science, NC State University Libraries, Crossref
Added: May 13, 2019

2019 journal article

Multi-locus DNA sequence analysis, antifungal agent susceptibility, and fungal keratitis outcome in horses from Southeastern United States

PLOS ONE, 14(3), e0214214.

By: M. Cullen n, M. Jacob n, V. Cornish n, I. VanderSchel n, H. Cotter n, M. Cubeta n, I. Carbone n, B. Gilger n

Ed(s): O. Kniemeyer

MeSH headings : Animals; Antifungal Agents / pharmacology; Eye Infections, Fungal / drug therapy; Eye Infections, Fungal / microbiology; Eye Infections, Fungal / veterinary; Horse Diseases / drug therapy; Horse Diseases / microbiology; Horses; Keratitis / drug therapy; Keratitis / microbiology; Keratitis / veterinary; Southeastern United States; Species Specificity; Thiabendazole / pharmacology
TL;DR: The results of this study suggest that treatment of equine FK with antifungal agents requires accurate fungal species identification, and demonstrate the importance of fungal identification to the species rather than genus level. (via Semantic Scholar)
Sources: Web Of Science, NC State University Libraries, Crossref, ORCID
Added: April 15, 2019

2019 journal article

T-BAS Version 2.1: Tree-Based Alignment Selector Toolkit for Evolutionary Placement of DNA Sequences and Viewing Alignments and Specimen Metadata on Curated and Custom Trees

Microbiology Resource Announcements, 8(29).

Ed(s): C. Cuomo

TL;DR: The Tree-Based Alignment Selector (T-BAS) toolkit combines phylogenetic-based placement of DNA sequences with alignment and specimen metadata visualization tools in an integrative pipeline for analyzing microbial biodiversity. (via Semantic Scholar)
UN Sustainable Development Goal Categories
15. Life on Land (Web of Science; OpenAlex)
Sources: Web Of Science, NC State University Libraries, Crossref
Added: August 5, 2019

2019 journal article

Trial Summary on the Comparison of Various Non-Aflatoxigenic Strains of Aspergillus flavus on Mycotoxin Levels and Yield in Maize

AGRONOMY JOURNAL, 111(2), 942–946.

By: M. Molo n, R. Heiniger n, L. Boerema n & I. Carbone n

Sources: Web Of Science, NC State University Libraries
Added: April 15, 2019

2018 journal article

Clarireedia: A new fungal genus comprising four pathogenic species responsible for dollar spot disease of turfgrass

Fungal Biology, 122(8), 761–773.

By: C. Salgado-Salazar*, L. Beirn*, A. Ismaiel*, M. Boehm*, I. Carbone n, A. Putman n, L. Tredway n, B. Clarke*, J. Crouch*

author keywords: Ascomycota; Leotiomycetes; Molecular phylogenetics; Rutstroemia; Sclerotinia
MeSH headings : Ascomycota / classification; Ascomycota / genetics; Ascomycota / growth & development; Ascomycota / isolation & purification; Calmodulin / genetics; Cluster Analysis; DNA, Fungal / chemistry; DNA, Fungal / genetics; DNA, Ribosomal Spacer / chemistry; DNA, Ribosomal Spacer / genetics; Microbiological Techniques; Microscopy; Minichromosome Maintenance Complex Component 7 / genetics; Phylogeny; Plant Diseases / microbiology; Poaceae / microbiology; Sequence Analysis, DNA
TL;DR: It is confirmed that S. homoeocarpa is not a species of Sclerotinia; nor is it a member of any known genus in the Rutstroemiaceae; these data support the establishment of a new genus, which is described here as Clarireedia gen. nov. (via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
15. Life on Land (OpenAlex)
Sources: Crossref, NC State University Libraries
Added: January 14, 2020

2018 journal article

Cultural and Genetic Approaches to Manage Aflatoxin Contamination: Recent Insights Provide Opportunities for Improved Control

Phytopathology, 108(9), 1024–1037.

By: P. Ojiambo n, P. Battilani n, J. Cary n, B. Blum n & I. Carbone n

MeSH headings : Aflatoxins / metabolism; Aspergillus flavus / chemistry; Aspergillus flavus / physiology; Crops, Agricultural; Disease Resistance; Food Contamination / prevention & control; Plant Diseases / immunology; Plant Diseases / microbiology; Plant Diseases / prevention & control; Plants, Genetically Modified; Zea mays / genetics; Zea mays / immunology; Zea mays / microbiology
Sources: Web Of Science, NC State University Libraries, Crossref, ORCID
Added: October 16, 2018

2018 report

Management practices for controlling mycotoxins in corn: A three-year summary

(NC State Extension Publications No. AG-852). http://content.ces.ncsu.edu/management-practices-for-controlling-mycotoxins-in-corn

By: M. Molo, R. Heiniger, L. Boerema & I. Carbone

Source: NC State University Libraries
Added: November 21, 2020

2018 journal article

Population structure and migration of the Tobacco Blue Mold Pathogen, Peronospora tabacina, into North America and Europe

Molecular Ecology, 27(3), 737–751.

By: M. Blanco-Meneses n, I. Carbone n & J. Ristaino n

author keywords: genetic structure; Peronospora tabacina; population genetics; tobacco
MeSH headings : Base Sequence; Europe; Geography; Likelihood Functions; Movement; North America; Peronospora / physiology; Phylogeny; Tobacco / microbiology
TL;DR: The models developed are applicable to other aerial dispersed emerging pathogens and document that high‐evolutionary‐risk plant pathogens can move over long distances to cause disease due to their large effective population size, population expansion and dispersal. (via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being (OpenAlex)
Sources: Web Of Science, NC State University Libraries, Crossref
Added: August 6, 2018

2017 journal article

Balancing selection for aflatoxin in Aspergillus flavus is maintained through interference competition with, and fungivory by insects

Proceedings of the Royal Society B: Biological Sciences, 284(1869), 20172408.

By: M. Drott*, B. Lazzaro*, D. Brown*, I. Carbone n & M. Milgroom*

author keywords: balancing selection; aflatoxin; fungivory; interference competition; secondary metabolism; mycotoxins
MeSH headings : Aflatoxins / metabolism; Animals; Aspergillus flavus / chemistry; Aspergillus flavus / genetics; Drosophila melanogaster / growth & development; Drosophila melanogaster / physiology; Food Microbiology; Herbivory; Larva / growth & development; Larva / physiology; Selection, Genetic
TL;DR: It is argued that the role of aflatoxin in protection from fungivory is inextricably linked to its role in interference competition, and the first clear evidence of a fitness advantage conferred to A. flavus by a flatoxin when interacting with insects is provided. (via Semantic Scholar)
Sources: Web Of Science, NC State University Libraries, Crossref
Added: August 6, 2018

2017 journal article

Global population structure and adaptive evolution of aflatoxin-producing fungi

Ecology and Evolution, 7(21), 9179–9191.

By: G. Moore*, R. Olarte*, B. Horn*, J. Elliott n, R. Singh n, C. O'Neal n, I. Carbone n

author keywords: Aspergillus; balancing selection; maximum likelihood; multilocus sequence typing; principal component analysis
TL;DR: While clay soil and precipitation may influence species richness in Aspergillus section Flavi, other region‐specific environmental and genetic parameters must also be considered. (via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger (OpenAlex)
Sources: Web Of Science, NC State University Libraries, Crossref
Added: August 6, 2018

2017 journal article

Occurrence and Distribution of Mating Types of Pseudoperonospora cubensis in the United States

Phytopathology, 107(3), 313–321.

By: A. Thomas n, I. Carbone n, Y. Cohen n & P. Ojiambo n

MeSH headings : Cucumis melo / parasitology; Cucumis sativus / parasitology; Oomycetes / genetics; Oomycetes / isolation & purification; Plant Diseases / parasitology; Reproduction
TL;DR: It is shown that A1 and A2 mating types of P. cubensis are present and the pathogen could potentially reproduce sexually in cucurbits within the United States. (via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being (OpenAlex)
Sources: Web Of Science, NC State University Libraries, Crossref, ORCID
Added: August 6, 2018

2017 journal article

Plastic potential: how the phenotypes and adaptations of pathogens are influenced by microbial interactions within plants

Current Opinion in Plant Biology, 38, 78–83.

MeSH headings : Adaptation, Physiological / genetics; Adaptation, Physiological / physiology; Biological Evolution; Genome, Plant / genetics; Host-Pathogen Interactions / genetics; Host-Pathogen Interactions / physiology; Plants / metabolism; Plants / microbiology
TL;DR: This work examines the plastic responses of individual plant pathogens to microbes within a shared host, as seen through changes in pathogen growth and multiplication and discusses the need to incorporate population-level observations with population genomic techniques. (via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
Sources: Web Of Science, NC State University Libraries, Crossref
Added: August 6, 2018

2017 journal article

Resurgence of cucurbit downy mildew in the United States: Insights from comparative genomic analysis of Pseudoperonospora cubensis

Ecology and Evolution, 7(16), 6231–6246.

By: A. Thomas n, I. Carbone n, K. Choe n, L. Quesada-Ocampo n & P. Ojiambo n

author keywords: coalescent analysis; cucurbits; disease resurgence; downy mildew; lineage; phylogenetic analysis
TL;DR: P. cubensis is associated with the resurgence of CDM on cucumber in the United States and its presence in two distinct evolutionary lineages (lineages I and II) is confirmed. (via Semantic Scholar)
UN Sustainable Development Goal Categories
15. Life on Land (OpenAlex)
Sources: Web Of Science, NC State University Libraries, Crossref, ORCID
Added: August 6, 2018

2017 journal article

Virulence Structure Within Populations of Pseudoperonospora cubensis in the United States

PHYTOPATHOLOGY, 107(6), 777–785.

By: A. Thomas n, I. Carbone n, A. Lebeda n & P. Ojiambo n

MeSH headings : Cucumis sativus / parasitology; Genotype; Host Specificity; Oomycetes / pathogenicity; Phenotype; Plant Diseases / parasitology; United States; Virulence / genetics
TL;DR: The diverse virulence and high virulence complexity within the pathogen population indicate that host resistance alone in available cucurbit cultivars will not be effective to control CDM. (via Semantic Scholar)
UN Sustainable Development Goal Categories
15. Life on Land (OpenAlex)
Sources: Web Of Science, NC State University Libraries, ORCID
Added: August 6, 2018

2016 journal article

Sexual Reproduction in Aspergillus flavus Sclerotia: Acquisition of Novel Alleles from Soil Populations and Uniparental Mitochondrial Inheritance

PLOS ONE, 11(1).

By: B. Horn*, R. Gell n, R. Singh n, R. Sorensen* & I. Carbone n

MeSH headings : Alleles; Aspergillus flavus / genetics; Genes, Mitochondrial; Genetic Variation; Reproduction / genetics; Soil; Soil Microbiology
TL;DR: Sclerotia formed in crops are dispersed onto the soil surface at harvest and are predominantly produced by single strains of one mating type and conidia from both strains functioned as female and male, respectively, indicating A. flavus is hermaphroditic, although the degree of fertility depended upon the parental sources. (via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger (OpenAlex)
Sources: Web Of Science, NC State University Libraries
Added: August 6, 2018

2016 journal article

T-BAS: Tree-Based Alignment Selector toolkit for phylogenetic-based placement, alignment downloads and metadata visualization: an example with the Pezizomycotina tree of life

Bioinformatics, 33(8), btw808.

By: I. Carbone n, J. White n, J. Miadlikowska*, A. Arnold*, M. Miller*, F. Kauff*, J. U'Ren*, G. May*, F. Lutzoni*

MeSH headings : Ascomycota / genetics; Endophytes / physiology; Genetic Loci; Metadata; Phylogeny; Sequence Alignment / methods; Software
TL;DR: The Tree‐Based Alignment Selector (T‐BAS) toolkit is developed to allow evolutionary placement and visualization of diverse DNA sequences representing unknown taxa within a robust phylogenetic context, and to permit the downloading of highly curated, single‐ and multi‐locus alignments for specific clades. (via Semantic Scholar)
Sources: Web Of Science, NC State University Libraries, Crossref
Added: August 6, 2018

2015 journal article

Characterization and distribution of mating-type genes of the turfgrass pathogen Sclerotinia homoeocarpa on a global scale

FUNGAL GENETICS AND BIOLOGY, 81, 25–40.

By: A. Putman n, L. Tredway n & I. Carbone n

author keywords: Sclerotinia homoeocarpa; Mating type; Sexual reproduction; Turfgrass; Asexual; Rutstroemiaceae
MeSH headings : Ascomycota / classification; Ascomycota / genetics; Ascomycota / isolation & purification; California; DNA Primers / genetics; DNA, Fungal / chemistry; DNA, Fungal / genetics; Genes, Fungal; Genes, Mating Type, Fungal; Genotype; Italy; Molecular Sequence Data; Multiplex Polymerase Chain Reaction / methods; Sequence Analysis, DNA; United Kingdom
UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
15. Life on Land (OpenAlex)
Sources: Web Of Science, NC State University Libraries
Added: August 6, 2018

2015 journal article

Enhanced diversity and aflatoxigenicity in interspecific hybrids ofAspergillus flavusandAspergillus parasiticus

Molecular Ecology, 24(8), 1889–1909.

By: R. Olarte n, C. Worthington n, B. Horn*, G. Moore*, R. Singh n, J. Monacell n, J. Dorner*, E. Stone n, D. Xie n, I. Carbone n

author keywords: allopolyploid; array comparative genome hybridization; flow cytometry; meiosis; population
MeSH headings : Aflatoxins / biosynthesis; Aspergillus / classification; Aspergillus / genetics; Aspergillus flavus / genetics; Comparative Genomic Hybridization; Genes, Mating Type, Fungal; Genotype; Genotyping Techniques; Hybridization, Genetic; Molecular Sequence Data; Phenotype; Phylogeny; Sequence Analysis, DNA; Sterigmatocystin / analogs & derivatives; Sterigmatocystin / biosynthesis
TL;DR: The results suggest that hybridization is an important diversifying force resulting in the genesis of novel toxin profiles in these agriculturally important fungi. (via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger (OpenAlex)
Sources: Web Of Science, NC State University Libraries, Crossref
Added: August 6, 2018

2015 journal article

Genetic structure and post-glacial expansion ofCornus floridaL. (Cornaceae): integrative evidence from phylogeography, population demographic history, and species distribution modeling

Journal of Systematics and Evolution, 54(2), 136–151.

By: A. Call n, Y. Sun n, Y. Yu n, P. Pearman*, D. Thomas*, R. Trigiano*, I. Carbone n, Q. Xiang n

author keywords: Bayesian skyride plot; Cornus florida; LGM; phylogeography; plastid DNA; post-glacial range expansion; species distribution modeling
TL;DR: This study demonstrates the benefit of integrating genetic data and species distribution modeling to obtain corroborative evidence in elucidating recent biogeographic history and understanding of genetic patterns and species evolution. (via Semantic Scholar)
UN Sustainable Development Goal Categories
15. Life on Land (Web of Science)
Sources: Crossref, NC State University Libraries, Web Of Science
Added: August 6, 2018

2015 journal article

Mitochondrial genome sequences reveal evolutionary relationships of the Phytophthora 1c clade species

Current Genetics, 61(4), 567–577.

By: E. Lassiter n, C. Russ*, C. Nusbaum*, Q. Zeng*, A. Saville n, R. Olarte n, I. Carbone n, C. Hu n ...

Contributors: E. Lassiter n, C. Russ*, C. Nusbaum*, Q. Zeng*, A. Saville n, R. Olarte n, I. Carbone n, C. Hu n ...

author keywords: Phytophthora 1 c clade; Mitochondria; Late blight; Phylogenetics
MeSH headings : Biological Evolution; Chimera / microbiology; Colombia; DNA, Mitochondrial / genetics; Ecuador; Genome, Mitochondrial; Solanum lycopersicum / microbiology; Mitochondria / genetics; Peru; Phylogeny; Phylogeography; Phytophthora / classification; Phytophthora / genetics; Phytophthora infestans / classification; Phytophthora infestans / genetics; Plant Diseases / microbiology; Sequence Analysis, DNA; Solanum tuberosum / microbiology
TL;DR: The ancestral state of the P. andina Ic lineage in the tree and its occurrence only in the Andean regions of Ecuador, Colombia and Peru suggests that the origin of this species hybrid in nature may occur there. (via Semantic Scholar)
UN Sustainable Development Goal Categories
15. Life on Land (OpenAlex)
Sources: Web Of Science, NC State University Libraries, Crossref, ORCID
Added: August 6, 2018

2015 journal article

Nuclear heterogeneity in conidial populations of Aspergillus flavus

FUNGAL GENETICS AND BIOLOGY, 84, 62–72.

By: F. Runa n, I. Carbone n, D. Bhatnagar* & G. Payne n

author keywords: Heterokaryosis; Ploidy; Heterokaryon; Diploid; A. flavus; Fluorescence microscopy; Flow cytometry
MeSH headings : Aspergillus flavus / genetics; Cell Fusion / methods; Diploidy; Flow Cytometry; Genetic Variation; Genotype; Green Fluorescent Proteins / chemistry; Green Fluorescent Proteins / genetics; Green Fluorescent Proteins / metabolism; Luminescent Proteins / chemistry; Luminescent Proteins / genetics; Luminescent Proteins / metabolism; Microscopy, Fluorescence; Nucleosomes; Ploidies; Recombinant Fusion Proteins / genetics; Recombinant Fusion Proteins / metabolism; Spores, Fungal / genetics
TL;DR: The findings suggest that A. flavus maintains nuclear heterogeneity in conidial populations, and characterization of conidia having only one nucleus but expressing both EYFP+ECFP fluorescence were found to be diploid. (via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger (OpenAlex)
Sources: Web Of Science, NC State University Libraries
Added: August 6, 2018

2015 journal article

Sexual recombination in Aspergillus tubingensis

MYCOLOGIA, 107(2), 307–312.

By: R. Olarte n, B. Horn*, R. Singh* & I. Carbone n

author keywords: Aspergillus niger; mating type; multilocus sequence typing; sexual reproduction
MeSH headings : Aspergillus / genetics; Aspergillus / physiology; Fungal Proteins / genetics; Fungal Proteins / metabolism; Genes, Mating Type, Fungal; Haplotypes; Recombination, Genetic
TL;DR: Recombination associated with sexual reproduction in A. tubingensis provides a new option for the genetic improvement of industrial strains for enzyme and organic acid production. (via Semantic Scholar)
Sources: Web Of Science, NC State University Libraries
Added: August 6, 2018

2015 report

The Use of Management Practices to Reduce Mycotoxin Contamination in Corn

(NC State Extension Publication No. AG-807). Raleigh, NC: North Carolina Cooperative Extension Service.

By: M. Meyers, R. Heiniger, L. Boerema & I. Carbone

Source: NC State University Libraries
Added: January 17, 2021

2014 review

Challenges in analysis and interpretation of microsatellite data for population genetic studies

[Review of ]. ECOLOGY AND EVOLUTION, 4(22), 4399–4428.

By: A. Putman n & I. Carbone n

author keywords: Data analysis; microsatellite; population genetics; population structure
TL;DR: This review assists with study design and molecular marker selection, facilitates sound interpretation of microsatellite data while fostering respect for their practical limitations, and identifies lessons that could be applied toward emerging markers and high-throughput technologies in population genetics. (via Semantic Scholar)
Sources: Web Of Science, NC State University Libraries
Added: August 6, 2018

2014 journal article

GENETIC VARIATION IN HORIZONTALLY TRANSMITTED FUNGAL ENDOPHYTES OF PINE NEEDLES REVEALS POPULATION STRUCTURE IN CRYPTIC SPECIES

AMERICAN JOURNAL OF BOTANY, 101(8), 1362–1374.

By: R. Oono n, F. Lutzoni*, A. Arnold*, L. Kaye*, . Jana M. U'Ren*, G. May*, I. Carbone n

author keywords: diversity; foliar fungal endophyte; Lophodermium; Pinus; Rhytismataceae; speciation
MeSH headings : Ascomycota / genetics; Biodiversity; Biological Evolution; Endophytes / genetics; Genetic Variation; Genetics, Population; North Carolina; Phylogeny; Pinus / microbiology; Plant Leaves / microbiology; Symbiosis; Virginia
TL;DR: The first evidence for isolation by distance in a foliar fungal endophyte that is horizontally transmitted is presented, presented for the first time in an endophytic fungus that is horizontal transmitted. (via Semantic Scholar)
UN Sustainable Development Goal Categories
14. Life Below Water (OpenAlex)
Sources: Web Of Science, NC State University Libraries
Added: August 6, 2018

2014 journal article

Mobyle SNAP Workbench: a web-based analysis portal for population genetics and evolutionary genomics

Bioinformatics, 30(10), 1488–1490.

By: J. Monacell n & I. Carbone n

MeSH headings : Automation, Laboratory; Genetics, Population; Genomics / methods; Internet; Phylogeny; Software
TL;DR: A web-based portal front-end, using the Mobyle portal framework, which executes all of the programs available in the stand-alone SNAP Workbench toolkit on a high-performance Linux cluster, and expanded the selection to over 189 tools, including population genetic, genome assembly and analysis tools, as well as metagenomic and large-scale phylogenetic analyses. (via Semantic Scholar)
Sources: Web Of Science, NC State University Libraries, Crossref
Added: August 6, 2018

2014 review

Mycotoxins that affect the North American agri-food sector: state of the art and directions for the future

[Review of ]. WORLD MYCOTOXIN JOURNAL, 7(1), 63–82.

author keywords: mycotoxins; USA; Canada; toxicology; mycology; crop production
Sources: Web Of Science, NC State University Libraries
Added: August 6, 2018

2014 journal article

Population structure and diversity of an invasive pine needle pathogen reflects anthropogenic activity

ECOLOGY AND EVOLUTION, 4(18), 3642–3661.

By: I. Barnes*, M. Wingfield*, I. Carbone n, T. Kirisits* & B. Wingfield*

author keywords: Climate change; fungi; gene flow; mating type genes; Mycosphaerella pini; population genetics
TL;DR: The global population diversity and structure of 458 isolates of D. septosporum from 14 countries on six continents using microsatellite markers was determined and reflected the anthropogenic history of the introduction and establishment of plantation forestry, particularly with Pinus radiata. (via Semantic Scholar)
Sources: Web Of Science, NC State University Libraries
Added: August 6, 2018

2014 journal article

Sexual Reproduction in Aspergillus flavus Sclerotia Naturally Produced in Corn

PHYTOPATHOLOGY, 104(1), 75–85.

By: B. Horn n, R. Sorensen*, M. Lamb*, V. Sobolev, R. Olarte*, C. Worthington*, I. Carbone*

author keywords: Aspergillus parasiticus; biological control; Eupenicillium ochrosalmoneum
MeSH headings : Aflatoxins / analysis; Aflatoxins / metabolism; Agricultural Irrigation; Aspergillus flavus / chemistry; Aspergillus flavus / cytology; Aspergillus flavus / genetics; Aspergillus flavus / physiology; Droughts; Plant Diseases / microbiology; Rain; Reproduction; Spores, Fungal / chemistry; Spores, Fungal / cytology; Spores, Fungal / genetics; Spores, Fungal / physiology; Temperature; Zea mays / microbiology
TL;DR: Aspergillus flavus is the major producer of carcinogenic aflatoxins worldwide in crops and incubation of sclerotia on the surface of nonsterile soil in the laboratory resulted in the formation of viable ascospores in A. flavus L and S strains and in homothallic A. alliaceus. (via Semantic Scholar)
UN Sustainable Development Goal Categories
6. Clean Water and Sanitation (OpenAlex)
Sources: Web Of Science, NC State University Libraries
Added: August 6, 2018

2014 journal article

Tissue storage and primer selection influence pyrosequencing-based inferences of diversity and community composition of endolichenic and endophytic fungi

MOLECULAR ECOLOGY RESOURCES, 14(5), 1032–1048.

By: . Jana M. U'Ren*, J. Riddle*, J. Monacell n, I. Carbone n, J. Miadlikowska* & A. Arnold*

author keywords: 454 amplicon pyrosequencing; diversity; ITSrDNA; lichen; moss; mycobiont; Peltigera; Pinus
MeSH headings : Biota; DNA Primers / genetics; Diagnostic Errors; Endophytes / classification; Endophytes / genetics; Endophytes / isolation & purification; Fungi / classification; Fungi / genetics; Fungi / isolation & purification; Molecular Sequence Data; Plants / microbiology; Preservation, Biological / methods; Sequence Analysis, DNA / methods; Specimen Handling / methods
TL;DR: The results provide a rationale for selecting tissue treatment regimes prior to DNA extraction, demonstrate the efficacy of reducing mycobiont amplification in studies of the fungal microbiomes of lichen thalli and highlight the difficulties in differentiating true information about fungal biodiversity from methodological artefacts. (via Semantic Scholar)
UN Sustainable Development Goal Categories
15. Life on Land (OpenAlex)
Sources: Web Of Science, NC State University Libraries
Added: August 6, 2018

2013 journal article

A calibrated human Y-chromosomal phylogeny based on resequencing

GENOME RESEARCH, 23(2), 388–395.

MeSH headings : Chromosomes, Human, Y; Emigration and Immigration; Ethnicity / genetics; Genetics, Population; Haplotypes; Humans; Male; Phylogeny; Polymorphism, Single Nucleotide
TL;DR: A nearly 10-fold increase in the number of Y markers with phylogenetic information, and novel historical insights derived from placing them on a calibrated phylogenetic tree are provided. (via Semantic Scholar)
Sources: Web Of Science, NC State University Libraries
Added: August 6, 2018

2013 journal article

Development and characterization of 14 microsatellite loci for the plant pathogenic fungus Sclerotinia homoeocarpa

Molecular Ecology Resources, 13(5), 966–968.

By: A. Putman, I. Carbone & L. Tredway

Source: NC State University Libraries
Added: January 17, 2021

2013 journal article

Fragmentation of an aflatoxin-like gene cluster in a forest pathogen

NEW PHYTOLOGIST, 198(2), 525–535.

By: R. Bradshaw*, J. Slot*, G. Moore*, P. Chettri*, P. Wit*, K. Ehrlich*, A. Ganley*, M. Olson* ...

author keywords: adaptive evolution; aflatoxin; Dothistroma septosporum; dothistromin; forest pathogen; gene cluster; gene organization; secondary metabolite
MeSH headings : Aflatoxins / chemistry; Aflatoxins / genetics; Anthraquinones / metabolism; Ascomycota / genetics; Biosynthetic Pathways / genetics; Evolution, Molecular; Genes, Fungal / genetics; Genetic Loci / genetics; Linkage Disequilibrium / genetics; Models, Genetic; Multigene Family / genetics; Phylogeny; Recombination, Genetic / genetics; Synteny / genetics; Trees / microbiology
TL;DR: This study focused on dothistromin genes, which are widely dispersed across one chromosome, to determine whether this unusual distributed arrangement evolved from an ancestral cluster, and suggests that cluster fragmentation may facilitate metabolic retooling and subsequent host adaptation of plant pathogens. (via Semantic Scholar)
UN Sustainable Development Goal Categories
15. Life on Land (OpenAlex)
Sources: Web Of Science, NC State University Libraries
Added: August 6, 2018

2013 journal article

Permanent genetic resources added to molecular ecology resources database 1 April 2013-31 May 2013

Molecular Ecology Resources, 13(5), 966–968.

By: C. Agostini, R. Albaladejo, A. Aparicio, W. Arthofer, P. Berrebi, P. Boag, I. Carbone, G. Conroy ...

Source: NC State University Libraries
Added: August 6, 2018

2013 journal article

Sexual reproduction in Aspergillus tubingensis from section Nigri

Mycologia, 105(5), 1153–1163.

By: B. Horn*, R. Olarte n, S. Peterson* & I. Carbone n

author keywords: ascospores; Aspergillus flavus; A. niger; heterothallism; mating type; sclerotium; stroma
MeSH headings : Aspergillus / classification; Aspergillus / cytology; Aspergillus / genetics; Aspergillus / physiology; Base Sequence; DNA, Fungal / chemistry; DNA, Fungal / genetics; Genes, Mating Type, Fungal / genetics; Molecular Sequence Data; North Carolina; Phylogeny; Reproduction; Sequence Analysis, DNA; Soil Microbiology; Spores, Fungal
TL;DR: Sexual reproduction in Aspergillus tubingensis may be useful for enhancing enzyme and organic acid production through recombination-mediated genetic engineering of industrial strains. (via Semantic Scholar)
Sources: Web Of Science, NC State University Libraries, Crossref
Added: August 6, 2018

2013 journal article

Sexuality Generates Diversity in the Aflatoxin Gene Cluster: Evidence on a Global Scale

PLoS Pathogens, 9(8), e1003574.

By: G. Moore*, J. Elliott n, R. Singh n, B. Horn*, J. Dorner*, E. Stone n, S. Chulze*, G. Barros* ...

Ed(s): B. McDonald

MeSH headings : Aflatoxins / biosynthesis; Aflatoxins / genetics; Aspergillus flavus / genetics; Aspergillus flavus / metabolism; Fungal Proteins / genetics; Fungal Proteins / metabolism; Genes, Fungal / physiology; Multigene Family / physiology; Repressor Proteins / genetics; Repressor Proteins / metabolism; Species Specificity
TL;DR: It is shown that the reproductive nature of the population (more sexual versus more asexual) is predictive of aflatoxin chemotype diversity in these agriculturally important fungi. (via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger (OpenAlex)
Sources: Web Of Science, NC State University Libraries, Crossref
Added: August 6, 2018

2012 journal article

Effect of sexual recombination on population diversity in aflatoxin production by Aspergillus flavus and evidence for cryptic heterokaryosis

MOLECULAR ECOLOGY, 21(6), 1453–1476.

By: R. Olarte n, B. Horn*, J. Dorner*, J. Monacell n, R. Singh n, E. Stone n, I. Carbone n

author keywords: array comparative genome hybridization; biological control; heritability; multilocus sequence typing; non-Mendelian segregation; vegetative compatibility group
MeSH headings : Aflatoxins / biosynthesis; Aspergillus flavus / genetics; Aspergillus flavus / metabolism; Comparative Genomic Hybridization; Fungal Proteins / genetics; Genes, Mating Type, Fungal / genetics; Genetic Variation; Karyotyping; Molecular Sequence Data; Multigene Family; Recombination, Genetic; Sequence Analysis, DNA
TL;DR: Results from experimental matings indicate that sexual recombination is driving genetic and functional hyperdiversity in A. flavus, and have significant implications for managing AF contamination of crops and for improving biocontrol strategies using nonaflatoxigenic strains of A. Flavus. (via Semantic Scholar)
Sources: Web Of Science, NC State University Libraries
Added: August 6, 2018

2012 report

Renaming the dollar spot fungus

Golf Course Management Current Research.

By: L. Beirn, B. Clarke, L. Tredway, I. Carbone, M. Boehm, A. Orshinsky, J. Crouch

Source: NC State University Libraries
Added: January 17, 2021

2011 journal article

A multidimensional study of endophytic fungal diversity

IMA Fungus, 2(1), 2–4.

By: A. Arnold, I. Carbone, F. Lutzoni & G. May

Source: NC State University Libraries
Added: January 17, 2021

2011 journal article

Climate change impacts on mycotoxin risks in US maize

World Mycotoxin Journal, 4(1), 79–93.

By: F. Wu*, D. Bhatnagar*, T. Bui-Klimke*, I. Carbone n, R. Hellmich*, G. Munkvold*, P. Paul, G. Payne n, E. Takle*

author keywords: climate change; maize; aflatoxins; fumonisins; deoxynivalenol
Sources: Crossref, NC State University Libraries, Web Of Science
Added: August 6, 2018

2011 journal article

Evidence that the Human Pathogenic Fungus Cryptococcus neoformans var. grubii May Have Evolved in Africa

PLoS ONE, 6(5), e19688.

By: A. Litvintseva*, I. Carbone n, J. Rossouw*, R. Thakur*, N. Govender & T. Mitchell*

Ed(s): K. Nielsen

MeSH headings : Cryptococcosis / microbiology; Cryptococcus neoformans / classification; Cryptococcus neoformans / genetics; Cryptococcus neoformans / pathogenicity; DNA, Fungal / genetics; Evolution, Molecular; Haplotypes; Humans; Molecular Sequence Data; Phylogeny; Recombination, Genetic
TL;DR: Evidence is presented that C. neoformans var. (via Semantic Scholar)
Sources: Web Of Science, NC State University Libraries, Crossref
Added: August 6, 2018

2011 journal article

Phylogenetic history of Phytophthora cryptogea and P. drechsleri Isolates from floriculture crops in North Carolina greenhouses

Phytopathology, 101(11), 1373–1384.

By: H. Olson, I. Carbone & D. Benson

Source: NC State University Libraries
Added: August 6, 2018

2011 journal article

Population Genetic Analysis of Tomato spotted wilt virus on Peanut in North Carolina and Virginia

PHYTOPATHOLOGY, 101(1), 147–153.

By: A. Kaye, J. Moyer*, E. Parks*, I. Carbone* & M. Cubeta*

author keywords: population diversity
MeSH headings : Arachis / virology; Genetic Variation; Haplotypes; North Carolina; Plant Diseases / virology; RNA, Viral; Tospovirus / genetics; Virginia
TL;DR: Estimates of the population mutation rate suggest that mutation has had a significant effect on the shaping of this population and, together with purifying selection, these forces have been the predominant evolutionary forces influencing the TSWV population in peanut in North Carolina and Virginia. (via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
Sources: Web Of Science, NC State University Libraries
Added: August 6, 2018

2011 journal article

Selection of Aspergillus flavus isolates for biological control of aflatoxins in corn

TOXIN REVIEWS, 30(2-3), 59–70.

author keywords: Biological control; mycotoxins; aflatoxins; cyclopiazonic acid; corn; Aspergillus flavus; competitive exclusion
TL;DR: Three well-studied non-aflatoxigenic strains, including two that are commercially available, have been compared in side-by-side field trials and are guiding the selection of biocontrol strains and influencing crop management decisions for safe and sustainable production. (via Semantic Scholar)
Sources: Web Of Science, NC State University Libraries
Added: August 6, 2018

2011 journal article

Sexual reproduction in aflatoxin-producing Aspergillus nomius

Mycologia, 103(1), 174–183.

By: B. Horn*, G. Moore* & I. Carbone n

author keywords: Aflatoxin; ascospores; Aspergillus flavus; Aspergillus parasiticus; heterothallism; Petromyces
MeSH headings : Aflatoxins / biosynthesis; Aflatoxins / genetics; Aspergillus / genetics; Aspergillus / metabolism; Aspergillus / physiology; Aspergillus / ultrastructure; Crosses, Genetic; Genes, Mating Type, Fungal; Microscopy, Electron, Scanning; Spores, Fungal / genetics; Spores, Fungal / metabolism; Spores, Fungal / ultrastructure
TL;DR: Sexual reproduction was examined in the aflatoxin-producing fungus Aspergillus nomius, and crosses between sexually compatible strains resulted in the formation of multiple nonostiolate ascocarps within stromata, which places the teleomorph in genus Petromyces. (via Semantic Scholar)
Sources: Web Of Science, NC State University Libraries, Crossref
Added: August 6, 2018

2011 chapter

The Population Dynamics of Aflatoxigenic Aspergilli

In R. G. Guevara-González (Ed.), Aflatoxins - Biochemistry and Molecular Biology.

By: G. Moore*, S. Beltz*, I. Carbone n, K. Ehrlich* & B. Horn*

Ed(s): R. Guevara-González

TL;DR: This study highlights the need to understand more fully the phytochemical properties of peanuts and its role in the immune response to pathologies. (via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger (OpenAlex)
Sources: Crossref, NC State University Libraries
Added: February 12, 2020

2010 conference paper

Population genetic analysis reveals ancient evolution and recent migration of P. ramorum

[Tech. Rep. PSW-GTR-229.]. In S. J. Frankel, J. T. Kliejunas, & K. M. Palmieri (Eds.), Proceedings of the Sudden Oak Death Fourth Science Symposium (pp. 116–118).

By: E. Goss, M. Larsen, I. Carbone, D. Givens, G. Chastagner, N. Grünwald, S. Frankel, J. Kliejunas, K. Palmieri

Ed(s): S. Frankel, J. Kliejunas & K. Palmieri

UN Sustainable Development Goal Categories
15. Life on Land (OpenAlex)
Sources: Crossref, NC State University Libraries
Added: February 6, 2021

2009 journal article

Ancient isolation and independent evolution of the three clonal lineages of the exotic sudden oak death pathogen Phytophthora ramorum

MOLECULAR ECOLOGY, 18(6), 1161–1174.

By: E. Goss*, I. Carbone n & N. Grunwald*

author keywords: coalescent; emerging disease; oomycete; plant disease; recombination; RXLR-class effector
MeSH headings : Amino Acid Sequence; Cell Nucleus / genetics; DNA, Plant / genetics; Europe; Evolution, Molecular; Genes, Fungal; Geography; Likelihood Functions; Molecular Sequence Data; North America; Phylogeny; Phytophthora / classification; Phytophthora / genetics; Polymorphism, Genetic; Quercus / microbiology; Recombination, Genetic; Sequence Analysis, DNA
TL;DR: The divergence of the three clonal lineages of P. ramorum supports a scenario in which the three lineages originated from different geographic locations that were sufficiently isolated from each other to allow independent evolution prior to introduction to North America and Europe. (via Semantic Scholar)
Sources: Web Of Science, NC State University Libraries
Added: August 6, 2018

2009 journal article

Molecular Diversity and Evolutionary Processes of Alternaria solani in Brazil Inferred Using Genealogical and Coalescent Approaches

PHYTOPATHOLOGY, 99(6), 765–774.

By: V. Lourenco, A. Moya, F. Gonzalez-Candelas, I. Carbone*, L. Maffia & E. Mizubuti

author keywords: molecular epidemiology; population genetics; variability
MeSH headings : Alternaria / genetics; Alternaria / pathogenicity; Brazil / epidemiology; DNA, Fungal / genetics; DNA, Intergenic / genetics; DNA, Ribosomal / genetics; Evolution, Molecular; Genetic Variation; Geography; Haplotypes / genetics; Solanum lycopersicum / microbiology; Mycoses / genetics; Plant Diseases / microbiology; Solanum tuberosum / microbiology
TL;DR: Gene genealogies based on the coalescent process were used to infer evolutionary processes that shape the A. solani population, and there is strong evidence that the subpopulation of A.solani that causes early blight in potato is genetically distinct from the subpopulations that causesEarly blight in tomato. (via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
3. Good Health and Well-being (OpenAlex)
13. Climate Action (Web of Science)
Sources: Web Of Science, NC State University Libraries
Added: August 6, 2018

2009 journal article

Population Genetic Analysis of an Eastern US Wheat Powdery Mildew Population Reveals Geographic Subdivision and Recent Common Ancestry with UK and Israeli Populations

PHYTOPATHOLOGY, 99(7), 840–849.

By: R. Parks n, I. Carbone*, J. Murphy & C. Cowger*

MeSH headings : Analysis of Variance; Ascomycota / classification; Ascomycota / genetics; Ascomycota / isolation & purification; Genetic Variation; Genetics, Population; Geography; Haplotypes; Israel; Phylogeny; Plant Diseases / microbiology; Plant Leaves / microbiology; Triticum / microbiology; United Kingdom; United States
TL;DR: The structure of the U.S. wheat powdery mildew population is investigated, finding the population is young, descended recently from Old World populations with isolation and genetic drift, and is currently subdivided into northern and southern subpopulations. (via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
3. Good Health and Well-being (OpenAlex)
13. Climate Action (Web of Science)
Sources: Web Of Science, NC State University Libraries
Added: August 6, 2018

2009 journal article

Recombination and lineage-specific gene loss in the aflatoxin gene cluster of Aspergillus flavus

MOLECULAR ECOLOGY, 18(23), 4870–4887.

By: G. Moore n, R. Singh n, B. Horn* & I. Carbone n

author keywords: ancestral recombination graph; balancing selection; coalescent; linkage disequilibrium
MeSH headings : Aflatoxins / genetics; Aspergillus flavus / genetics; Base Composition; DNA, Fungal / genetics; Evolution, Molecular; Genetic Variation; Genetics, Population; Genome, Fungal; Linkage Disequilibrium; Multigene Family; Recombination, Genetic; Selection, Genetic; Sequence Alignment; Sequence Analysis, DNA; Telomere / genetics
UN Sustainable Development Goal Categories
2. Zero Hunger (OpenAlex)
Sources: Web Of Science, NC State University Libraries
Added: August 6, 2018

2009 journal article

Sexual reproduction and recombination in the aflatoxin-producing fungus Aspergillus parasiticus

FUNGAL GENETICS AND BIOLOGY, 46(2), 169–175.

By: B. Horn*, J. Ramirez-Prado n & I. Carbone n

author keywords: Aflatoxin; Aspergillus flavus; Aspergillus parasiticus; Biological control; Genetic recombination; Heterothallism; Petromyces; Sexual reproduction; Vegetative compatibility
MeSH headings : Aflatoxins / biosynthesis; Aspergillus / genetics; Aspergillus / physiology; Chromosomes, Fungal / genetics; Genes, Mating Type, Fungal; Genetic Variation; Recombination, Genetic; Spores, Fungal / genetics; Spores, Fungal / metabolism
TL;DR: The discovery of the sexual stage in Aspergillus parasiticus has important implications for current biological control strategies using nontoxigenic strains to reduce aflatoxin contamination in crops. (via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger (OpenAlex)
Sources: Web Of Science, NC State University Libraries
Added: August 6, 2018

2009 journal article

Sexual reproduction in Aspergillus flavus

MYCOLOGIA, 101(3), 423–429.

By: B. Horn*, G. Moore* & I. Carbone n

author keywords: aflatoxin; Aspergillus alliaceus; Aspergillus parasiticus; heterothallism; Petromyces alliaceus; Petromyces flavus; Petromyces parasitucus; Trichocomaceae
MeSH headings : Aspergillus flavus / classification; Aspergillus flavus / cytology; Aspergillus flavus / physiology; Crosses, Genetic; Eurotiales / classification; Eurotiales / cytology; Eurotiales / physiology; Reproduction / physiology; Sex; Spores, Fungal / cytology; Spores, Fungal / physiology
TL;DR: Multiple, indehiscent ascocarps containing asci and ascospores formed within the pseudoparenchymatous matrix of stromata, which places the fungus in genus Petromyces. (via Semantic Scholar)
Sources: Web Of Science, NC State University Libraries
Added: August 6, 2018

2009 journal article

The sexual state of Aspergillus parasiticus

MYCOLOGIA, 101(2), 275–280.

By: B. Horn*, J. Ramirez-Prado & I. Carbone n

author keywords: Aspergillus alliaceus; heterothallism; Petromyces alliaceus; Petromyces parasiticus; sexual reproduction; Trichocomaceae
MeSH headings : Aspergillus / cytology; Aspergillus / physiology; Reproduction / physiology; Species Specificity
TL;DR: The sexual state of Aspergillus parasiticus, a potent aflatoxin-producing fungus within section Flavi, is described and the production of nonostiolate ascocarps surrounded by a separate peridium within the stroma places the teleomorph in genus Petromyces. (via Semantic Scholar)
UN Sustainable Development Goal Categories
15. Life on Land (OpenAlex)
Sources: Web Of Science, NC State University Libraries
Added: August 6, 2018

2008 journal article

Altered patterns of gene duplication and differential gene gain and loss in fungal pathogens

BMC GENOMICS, 9.

By: A. Powell*, G. Conant*, D. Brown n, I. Carbone n & R. Dean n

Contributors: A. Powell*, G. Conant*, D. Brown n, I. Carbone n & R. Dean n

MeSH headings : Computational Biology; Evolution, Molecular; Fungi / genetics; Fungi / pathogenicity; Gene Duplication; Genomics; Multigene Family / genetics; Sequence Homology
TL;DR: Differences in the overall levels of gene duplication in phytopathogenic species versus non-pathogenic relatives implicate gene inventory flux as an important virulence-associated process in fungi. (via Semantic Scholar)
Sources: Web Of Science, NC State University Libraries, ORCID
Added: August 6, 2018

2008 journal article

Characterization and population analysis of the mating-type genes in Aspergillus flavus and Aspergillus parasiticus

FUNGAL GENETICS AND BIOLOGY, 45(9), 1292–1299.

author keywords: heterothallic; homothallic; vegetative compatibility; haplotype; fungi
MeSH headings : Amino Acid Sequence; Arachis / microbiology; Aspergillus / classification; Aspergillus / genetics; Aspergillus / isolation & purification; Aspergillus / metabolism; Genes, Mating Type, Fungal; Molecular Sequence Data; Mycological Typing Techniques; Polymerase Chain Reaction; Sequence Alignment; Soil Microbiology; Transcription, Genetic
TL;DR: The existence of both mating-type genes in equal proportions in A. flavus and A. parasiticus populations, coupled with their expression at the mRNA level and the high amino acid sequence identity of MAT1-1 and MAT2 with corresponding homologs in P. alliaceus, indicates the potential functionality of these genes and the possible existence of a sexual state in these agriculturally important species. (via Semantic Scholar)
Sources: Web Of Science, NC State University Libraries
Added: August 6, 2018

2008 journal article

Chloroplast DNA phylogeography in long-lived Huon pine, a Tasmanian rain forest conifer

CANADIAN JOURNAL OF FOREST RESEARCH, 38(6), 1576–1589.

By: C. Clark n & I. Carbone n

TL;DR: Genealogy based methods were used to estimate phylogeographic history for a Tasmanian endemic conifer, Huon pine, and two of the five haplotypes were widely distributed, but the most frequently occurring haplotype was found only in the western portion of the range. (via Semantic Scholar)
UN Sustainable Development Goal Categories
15. Life on Land (Web of Science; OpenAlex)
Sources: Web Of Science, NC State University Libraries
Added: August 6, 2018

2008 journal article

GT-Miner: a graph-theoretic data miner, viewer, and model processor

Bioinformation, 3(5), 235–237.

By: D. Brown n, A. Powell n, I. Carbone n & R. Dean n

author keywords: graph theory; data mining; visualization; information visualization
TL;DR: GT-Miner is designed for visual data analysis and mining operations, interacts with other software, including databases, and works with diverse data types, and facilitates a discovery-oriented approach to data mining. (via Semantic Scholar)
Sources: Crossref, NC State University Libraries
Added: January 28, 2020

2008 journal article

Phylogenetic relatedness of the M2 double-stranded RNA in Rhizoctonia fungi

MYCOLOGIA, 100(4), 555–564.

By: N. Charlton n, I. Carbone n, S. Tavantzis* & M. Cubeta n

author keywords: anastomosis groups; binucleate Rhizoctonia; Ceratobasidium; mycoviruses; Thanatephorus
MeSH headings : Haplotypes; Molecular Sequence Data; Mycological Typing Techniques; Phylogeny; Plant Diseases / microbiology; Polymerase Chain Reaction; RNA, Double-Stranded / genetics; RNA, Viral / genetics; Rhizoctonia / classification; Rhizoctonia / genetics; Rhizoctonia / isolation & purification; Rhizoctonia / virology; Soil Microbiology
TL;DR: The rooted gene genealogies from coalescent simulations suggested that the ancestral M2 dsRNA haplotype most likely evolved in Thanatephorus and has been acquired recently by isolates of Ceratobasidium. (via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
Sources: Web Of Science, NC State University Libraries
Added: August 6, 2018

2008 journal article

Virulence structure of the Eastern US wheat powdery mildew population

PLANT DISEASE, 92(7), 1074–1082.

By: R. Parks n, I. Carbone*, J. Murphy n, D. Marshall n & C. Cowger n

author keywords: Blumeria graminis f. sp tritici; Triticum aestivum
TL;DR: Virulence frequencies were used to infer local effectiveness of Pm genes, estimate virulence complexity, detect significant associations between pairs of pathogen avirulence loci, and assess whether phenotypic differences between pathogen subpopulations increased with geographic distance. (via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
15. Life on Land (Web of Science)
Sources: Web Of Science, NC State University Libraries
Added: August 6, 2018

2007 journal article

An Andean origin of Phytophthora infestans inferred from mitochondrial and nuclear gene genealogies

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 104(9), 3306–3311.

By: L. Gomez-Alpizar*, I. Carbone n & J. Ristaino*

Contributors: L. Gómez-Alpizar*, I. Carbone n & J. Ristaino*

author keywords: late blight; oomycetes; phylogeography; Solanum tuberosum; stamenopiles
MeSH headings : Base Sequence; DNA, Mitochondrial / genetics; Demography; Evolution, Molecular; Genes, ras / genetics; Genetic Variation; Haplotypes / genetics; Molecular Sequence Data; Phylogeny; Phytophthora / genetics; Sequence Analysis, DNA; Solanum tuberosum / microbiology; South America; Tubulin / genetics
TL;DR: The geographic distribution of mutations on the rooted gene genealogies demonstrate that the oldest mutations in P. infestans originated in South America and are consistent with a South American origin. (via Semantic Scholar)
Sources: Web Of Science, NC State University Libraries, ORCID
Added: August 6, 2018

2007 journal article

Gene duplication, modularity and adaptation in the evolution of the aflatoxin gene cluster

BMC EVOLUTIONARY BIOLOGY, 7.

By: I. Carbone n, J. Ramirez-Prado n, J. Jakobek n & B. Horn*

MeSH headings : Acclimatization / genetics; Aflatoxins / genetics; Aspergillus / genetics; Gene Duplication; Genes, Fungal; Genome, Fungal; Models, Biological; Multigene Family; Phylogeny; Sequence Homology, Amino Acid; Species Specificity
TL;DR: The authors' results implicate several genomic mechanisms in the evolution of ST, OMST and AF cluster genes, including gene modules that are contiguous in one species and noncontiguous in others point to possible rearrangements of cluster genes in the Evolution of these species. (via Semantic Scholar)
UN Sustainable Development Goal Categories
15. Life on Land (OpenAlex)
Sources: Web Of Science, NC State University Libraries
Added: August 6, 2018

2007 journal article

Impact of population structure on genetic diversity of a potential vaccine target in the canine hookworm (Ancylostoma caninum)

JOURNAL OF PARASITOLOGY, 93(4), 796–805.

By: J. Moser n, I. Carbone n, P. Arasu n & G. Gibson n

MeSH headings : Ancylostoma / genetics; Ancylostoma / growth & development; Ancylostoma / immunology; Ancylostomiasis / parasitology; Ancylostomiasis / veterinary; Animals; DNA, Helminth / chemistry; Dog Diseases / parasitology; Dogs; Electron Transport Complex IV / genetics; Electron Transport Complex IV / immunology; Female; Genetic Variation; Haplotypes; Helminth Proteins / genetics; Helminth Proteins / immunology; Male; Maryland; North Carolina; Population Dynamics; Queensland; Vaccines / genetics; Vaccines / immunology
TL;DR: Test whether positive selection, population structure, or both affect genetic variation at the candidate vaccine target Ancylostoma secreted protein 1 (asp-1), using the statistical population analysis tools found in the SNAP Workbench. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Sources: Web Of Science, NC State University Libraries
Added: August 6, 2018

2007 journal article

New populations of Sclerotinia sclerotiorum from lettuce in California and peas and lentils in Washington

PHYTOPATHOLOGY, 97(4), 470–483.

By: G. Malvarez, I. Carbone*, N. Grunwald, K. Subbarao, M. Schafer & L. Kohn

author keywords: migration; MDIV; mating type; multilocus haplotype; MCG; population genetics; phylogeny; vegetative compatibility
TL;DR: Four populations of S. sclerotiorum in North America were inferred previously, based on analyses of both rapidly evolving markers (DNA fingerprint and mycelial compatiblity) and multilocus DNA sequence spanning the range between fast and slow evolution, to be extended to the Western United States. (via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
15. Life on Land (OpenAlex)
Sources: Web Of Science, NC State University Libraries
Added: August 6, 2018

2007 journal article

Recombination, balancing selection and adaptive evolution in the aflatoxin gene cluster of Aspergillus parasiticus

MOLECULAR ECOLOGY, 16(20), 4401–4417.

By: I. Carbone n, J. Jakobek n, J. Ramirez-Prado n & B. Horn*

author keywords: coalescent; compatibility; linkage disequilibrium; recombination blocks
MeSH headings : Adaptation, Physiological / genetics; Aflatoxins / genetics; Aspergillus / classification; Aspergillus / genetics; Base Sequence; DNA, Fungal / chemistry; DNA, Fungal / genetics; Evolution, Molecular; Genetic Variation; Models, Genetic; Molecular Sequence Data; Multigene Family / genetics; Phylogeny; Recombination, Genetic; Selection, Genetic; Sequence Analysis, DNA; Sequence Homology, Nucleic Acid; Time Factors
TL;DR: Estimates of Ka/Ks for representative cluster genes provide evidence of selection for OMST and AF chemotypes, and indicate a possible role of chemotypes in ecological adaptation and speciation. (via Semantic Scholar)
Sources: Web Of Science, NC State University Libraries
Added: August 6, 2018

2007 journal article

The evolutionary history of Cytochrome P450 genes in four filamentous Ascomycetes

BMC EVOLUTIONARY BIOLOGY, 7.

By: J. Deng n, I. Carbone n & R. Dean n

MeSH headings : Amino Acid Motifs; Amino Acid Sequence; Ascomycota / enzymology; Ascomycota / genetics; Aspergillus nidulans / enzymology; Aspergillus nidulans / genetics; Conserved Sequence; Cytochrome P-450 Enzyme System / genetics; Evolution, Molecular; Exons; Fusarium / enzymology; Fusarium / genetics; Gene Duplication; Genes, Fungal; Introns; Magnaporthe / enzymology; Magnaporthe / genetics; Multigene Family; Neurospora crassa / enzymology; Neurospora crassa / genetics; Phylogeny
UN Sustainable Development Goal Categories
15. Life on Land (OpenAlex)
Sources: Web Of Science, NC State University Libraries
Added: August 6, 2018

2006 journal article

SNAP: Combine and Map modules for multilocus population genetic analysis

Bioinformatics, 22(11), 1399–1401.

By: D. Aylor, E. Price & I. Carbone

Sources: NC State University Libraries, NC State University Libraries
Added: August 6, 2018

2005 journal article

Phylogenetic analysis of Pasteuria penetrans by use of multiple genetic loci

JOURNAL OF BACTERIOLOGY, 187(16), 5700–5708.

By: L. Charles n, I. Carbone n, K. Davies*, D. Bird n, M. Burke n, B. Kerry*, C. Opperman n

Contributors: L. Charles n, I. Carbone n, K. Davies*, D. Bird n, M. Burke n, B. Kerry*, C. Opperman n

MeSH headings : Animals; Bacillus / genetics; Bacterial Proteins / genetics; Bayes Theorem; Models, Genetic; Phylogeny; Tylenchoidea / microbiology
TL;DR: It is suggested that P. penetrans may have evolved from an ancient symbiotic bacterial associate of nematodes, possibly as the root knot nematode evolved to be a highly specialized parasite of plants. (via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
Sources: Web Of Science, NC State University Libraries, ORCID
Added: August 6, 2018

2005 journal article

SNAP: workbench management tool for evolutionary population genetic analysis

BIOINFORMATICS, 21(3), 402–404.

By: E. Price n & I. Carbone n

MeSH headings : Computer Simulation; DNA Mutational Analysis / methods; Evolution, Molecular; Genetic Variation / genetics; Genetics, Population; Models, Genetic; Models, Statistical; Sequence Alignment / methods; Sequence Analysis, DNA / methods; Software; Systems Integration
TL;DR: The workbench enhances population parameter estimation by ensuring that the assumptions and program limitations of each method are met and by providing a step-by-step methodology for examining population processes that integrates both summary-statistic methods and coalescent-based population genetic models. (via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
Sources: Web Of Science, NC State University Libraries
Added: August 6, 2018

2005 journal article

The genome sequence of the rice blast fungus Magnaporthe grisea

NATURE, 434(7036), 980–986.

By: R. Dean n, N. Talbot*, D. Ebbole*, M. Farman*, T. Mitchell n, M. Orbach*, M. Thon*, R. Kulkarni n ...

MeSH headings : Fungal Proteins / genetics; Fungal Proteins / metabolism; Genes, Fungal / genetics; Genome, Fungal; Guanosine Diphosphate / metabolism; Guanosine Triphosphate / metabolism; Magnaporthe / classification; Magnaporthe / genetics; Magnaporthe / metabolism; Magnaporthe / pathogenicity; Oryza / microbiology; Plant Diseases / microbiology; Point Mutation / genetics; Proteome / genetics; Proteome / metabolism; Receptors, G-Protein-Coupled / genetics; Repetitive Sequences, Nucleic Acid / genetics; Saccharomyces cerevisiae / metabolism; Signal Transduction; Virulence / genetics
TL;DR: The draft sequence of the M. grisea genome is reported, reflecting the clonal nature of this fungus imposed by widespread rice cultivation and analysis of the gene set provides an insight into the adaptations required by a fungus to cause disease. (via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
Sources: Web Of Science, NC State University Libraries
Added: August 6, 2018

2004 chapter

Inferring Process from Pattern in Fungal Population Genetics

In Fungal Genomics (pp. 29–58).

By: I. Carbone n & L. Kohn*

TL;DR: This review focuses on powerful new methods for determining population patterning over time and space and how from this, the dynamic processes leading to population divergence and speciation can be inferred. (via Semantic Scholar)
Sources: Crossref, NC State University Libraries
Added: January 28, 2020

2004 journal article

Recombination and migration of Cryphonectria hypovirus 1 as inferred from gene genealogies and the coalescent

GENETICS, 166(4), 1611–1629.

By: I. Carbone n, Y. Liu, B. Hillman & M. Milgroom

MeSH headings : Ascomycota / virology; Base Sequence; DNA, Complementary / genetics; Disease Transmission, Infectious; Evolution, Molecular; Genetics, Population; Geography; Haplotypes / genetics; Italy; Models, Genetic; Molecular Sequence Data; Phylogeny; RNA Viruses / genetics; RNA Viruses / physiology; Recombination, Genetic / genetics; Reproduction / genetics; Sequence Alignment; Sequence Analysis, DNA
TL;DR: Genealogical analyses inferred migration patterns throughout the entire coalescent history of one viral region in natural populations and not just recent patterns of migration or laboratory transmission, providing markedly stronger inferences on overall transmission rates than laboratory estimates do. (via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
Sources: Web Of Science, NC State University Libraries
Added: August 6, 2018

2002 journal article

Phylogeography and Genotype-Symptom Associations in Early and Late Season Infections of Canola by Sclerotinia sclerotiorum

Phytopathology, 92(7), 785–793.

By: D. Phillips, I. Carbone*, S. Gold & L. Kohn

author keywords: cladistic inference; genome size; multilocus sequence typing; nested haplotype networks
TL;DR: Contingency permutation testing for associations of infection type with DNA fingerprint, single- or multilocus haplotype, or hierarchically nested clades based on single locus haplotypes found significant association of haplotype with mycelial compatibility group and DNA fingerprint for all loci except CAL. (via Semantic Scholar)
UN Sustainable Development Goal Categories
15. Life on Land (OpenAlex)
Sources: Crossref, NC State University Libraries
Added: January 28, 2020

2001 journal article

A microbial population-species interface: nested cladistic and coalescent inference with multilocus data

Molecular Ecology, 10(4), 947–964.

By: I. Carbone* & L. Kohn*

author keywords: fungi; migration; recombination; Sclerotinia; site compatibility; speciation
MeSH headings : Ascomycota / classification; Ascomycota / genetics; Ascomycota / physiology; Computer Simulation; Ecosystem; Evolution, Molecular; Genetic Variation; Genetics, Population; Haplotypes; Likelihood Functions; Mutation; Phylogeny; Recombination, Genetic; Species Specificity
TL;DR: Using sequence data from seven nuclear loci in 385 isolates of the haploid, plant parasitic, ascomycete fungus, Sclerotinia, divergence times of populations and of species were distinguished and the evolutionary history of haplotypes on both population and species scales was reconstructed using a combination of parsimony, maximum likelihood and coalescent methods. (via Semantic Scholar)
UN Sustainable Development Goal Categories
15. Life on Land (OpenAlex)
Sources: Crossref, NC State University Libraries
Added: January 28, 2020

2001 journal article

Multilocus nested haplotype networks extended with DNA fingerprints show common origin and fine-scale, ongoing genetic divergence in a wild microbial metapopulation

Molecular Ecology, 10(10), 2409–2422.

By: I. Carbone* & L. Kohn*

author keywords: fungi; genome size; IGS; microsatellite expansion; recombination block; Sclerotinia
MeSH headings : Ascomycota / classification; Ascomycota / genetics; DNA Fingerprinting; Genetic Variation; Haplotypes / genetics; Microsatellite Repeats; Norway; Phylogeny; Ranunculaceae / microbiology
TL;DR: Variation in the elongation factor 1α and calmodulin loci supported the topologies and the recurrent, ongoing polarity of change in fingerprints and IGS size inferred from the IGS. (via Semantic Scholar)
UN Sustainable Development Goal Categories
15. Life on Land (OpenAlex)
Sources: Crossref, NC State University Libraries
Added: January 28, 2020

1999 journal article

A Method for Designing Primer Sets for Speciation Studies in Filamentous Ascomycetes

Mycologia, 91(3), 553.

By: I. Carbone* & L. Kohn*

author keywords: Aspergillus nidulans; intergenic spacer; Neurospora crassa; Sclerotinia sclerotiorum; Trichophyton rubrum
TL;DR: A simple method is described for designing primer sets that can amplify specific protein-encoding sequences in a wide variety of filamentous ascomycetes. (via Semantic Scholar)
Sources: Crossref, NC State University Libraries
Added: January 28, 2020

1999 journal article

Patterns of Descent in Clonal Lineages and Their Multilocus Fingerprints Are Resolved with Combined Gene Genealogies

Evolution, 53(1), 11.

By: I. Carbone*, J. Anderson & L. Kohn

Sources: Crossref, NC State University Libraries
Added: January 28, 2020

1995 journal article

A group-I intron in the mitochondrial small subunit ribosomal RNA gene of Sclerotinia sclerotiorum

Current Genetics, 27(2), 166–176.

By: I. Carbone*, J. Anderson* & L. Kohn*

author keywords: ASEXUAL REPRODUCTION; CLONALITY; GROUP-I INTRON; MITOCHONDRIAL SMALL SUBUNIT RIBOSOMAL RNA GENE; SCLEROTINIA SCLEROTIORUM
MeSH headings : Amino Acid Sequence; Ascomycota / genetics; Base Sequence; Biological Evolution; Blotting, Southern; Conserved Sequence; DNA, Mitochondrial / genetics; DNA, Ribosomal / chemistry; DNA, Ribosomal / genetics; Fungi / genetics; Introns / genetics; Models, Biological; Molecular Sequence Data; Polymerase Chain Reaction; RNA, Ribosomal / chemistry; RNA, Ribosomal / genetics; Sequence Alignment; Sequence Analysis, DNA
TL;DR: A 1 380-bp intervening sequence within the mitochondrial small subunit ribosomal RNA gene of the fungus Sclerotinia sclerotiorum has been sequenced and identified as a group-I intron, the first report of an intron in the mt SSU rRNA gene. (via Semantic Scholar)
Sources: Crossref, NC State University Libraries
Added: January 28, 2020

1993 journal article

Ribosomal DNA Sequence Divergence within Internal Transcribed Spacer 1 of the Sclerotiniaceae

Mycologia, 85(3), 415.

By: I. Carbone* & L. Kohn*

author keywords: ASCOMYCETES; DISCOMYCETES; INTERNAL TRANSCRIBED SPACER; TAXONOMY
TL;DR: It is concluded that a substratal lineage cannot be discerned based on sequence data from the ITS, and one statistically strongly supported tree is produced for a group of species in the genus Rutstroemia, including Sclerotinia homoeocarpa. (via Semantic Scholar)
UN Sustainable Development Goal Categories
15. Life on Land (OpenAlex)
Sources: Crossref, NC State University Libraries
Added: January 28, 2020

1991 journal article

Mycelial Incompatibility and Molecular Markers Identify Genetic Variability in Field Populations of Sclerotinia sclerotiorum

Phytopathology, 81(4), 480–485.

By: L. Kohn, E. Stasovski, I. Carbone, J. Royer & J. Anderson

author keywords: DNA FINGERPRINTING; OILSEED RAPE; SCLEROTINIA STEM ROT
TL;DR: Sclerotial strains of Sclerotinia were obtained from transects in two fields of canola in Ontario and six mycelial compatibility groups (MCGs) were recognized, the largest group including 19 strains from the first field. (via Semantic Scholar)
Sources: Crossref, NC State University Libraries
Added: February 12, 2020

1990 journal article

Mycelial interactions in Sclerotinia sclerotiorum

Experimental Mycology, 14(3), 255–267.

By: L. Kohn*, I. Carbone* & J. Anderson*

TL;DR: The data from this study suggest that a high level of mycelial incompatibility exists among strains of S. sclerotiorum, comparable to levels of vegetative incompatibility reported in other ascomycetes, that the extent of my celial incomp compatibility indicates that genetic heterogeneity exists within the species, and that mycelian compatibility/incompatibility reactions may be an effective way of categorizing intraspecific heterogeneity. (via Semantic Scholar)
UN Sustainable Development Goal Categories
15. Life on Land (OpenAlex)
Sources: Crossref, NC State University Libraries
Added: January 28, 2020

journal article

A transcriptional network associated with natural variation in Drosophila aggressive behavior

Edwards, A. C., Ayroles, J. F., Stone, E. A., Carbone, M. A., Lyman, R. F., & Mackay, T. F. C. Genome Biology, 10(7).

By: A. Edwards, J. Ayroles, E. Stone, M. Carbone, R. Lyman & T. Mackay

Source: NC State University Libraries
Added: August 6, 2018

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