Works (25)
Updated: December 11th, 2024 05:07
2024 article
High-quality draft genome sequence of <i>Paenibacillus</i> sp. RC80, a candidate for biofuel production
Rizzo, G., Choudoir, M., Simoes, R., Dayarathne, N., & Deangelis, K. M. (2024, June 7). (J. C. Thrash, Ed.). MICROBIOLOGY RESOURCE ANNOUNCEMENTS, Vol. 6.
Ed(s): J. Thrash
author keywords: soil microbiology; environmental microbiology; bioinformatics
open access via doi.org (publisher)
UN Sustainable Development Goal Categories
15. Life on Land
(Web of Science)
Sources: ORCID, Web Of Science, NC State University Libraries
Added: June 8, 2024
2024 journal article
Seasonal effects of long-term warming on ecosystem function and bacterial diversity
PLOS ONE, 19(10).
Ed(s): M. Vestergård
Sources: ORCID, Web Of Science, NC State University Libraries
Added: October 24, 2024
2023 article
Complete genome sequence of <i>Bacillus thuringiensis</i> strain RC340, isolated from a temperate forest soil sample in New England
Sullivan, B., Kitzmiller, C. E., Tran, W. C., Choudoir, M., Simoes, R., Dayarathne, N., & DeAngelis, K. M. (2023, October 31). (D. Rasko, Ed.). MICROBIOLOGY RESOURCE ANNOUNCEMENTS, Vol. 10.
Ed(s): D. Rasko
author keywords: environmental microbiology; DNA sequencing; climate change; soil microbiology; microbiology; genome analysis
TL;DR:
The complete genome sequence of Bacillus thuringiensis strain RC340, isolated from an environmental microbiology experiment soil sample, sequenced by GridION is presented.
(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: December 4, 2023
2023 journal article
Draft genome sequence of <i>Paenibacillus</i> sp. strain RC67, an isolate from a long-term forest soil warming experiment in Petersham, Massachusetts
MICROBIOLOGY RESOURCE ANNOUNCEMENTS, 10.
author keywords: soil microbiology; microbial ecology; bioinformatics
TL;DR:
Paenibacillus strain RC67 was isolated from the Harvard Forest long-term soil warming experiment and genome annotation suggests that the isolate is of a novel bacterial species.
(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: November 6, 2023
2023 journal article
High-quality genomes of Paenibacillus spp. RC334 and RC343, isolated from a long-term forest soil warming experiment
MICROBIOLOGY RESOURCE ANNOUNCEMENTS, 8.
Ed(s): D. Baltrus
author keywords: soil microbiology; climate change
TL;DR:
The assembly and annotation of the two high-quality draft genomes for these isolates of Paenibacillus spp.
(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: September 11, 2023
2023 article
Pangenomes reveal genomic signatures of microbial adaptation to experimental soil warming
Choudoir, M. J., Narayanan, A., Rodriguez-Ramos, D., Simoes, R., Efroni, A., Sondrini, A., & DeAngelis, K. M. (2023, March 17).
TL;DR:
Data from an ongoing in situ soil warming experiment at the Harvard Forest Long-term Ecological Research (LTER) site illustrate the emergence of lineage-specific traits as well as common ecological-evolutionary microbial responses to climate change.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
13. Climate Action
(OpenAlex)
Source: ORCID
Added: February 2, 2024
2022 journal article
A framework for integrating microbial dispersal modes into soil ecosystem ecology
IScience, 25(3), 103887.
TL;DR:
This work proposes the classification of microbial dispersal into three categories, through vegetative or active cells, through dormant cells, and through acellular dispersal, each with unique spatiotemporal dynamics and microbial trait associations that should improve the integration of dispersal in defining soil microbial community structure-function relationships.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
15. Life on Land
(OpenAlex)
Source: ORCID
Added: September 18, 2022
2022 article
Chitosan diet alters the microbiome of adult house flies
Schaal, H., Choudoir, M. J., Diwanji, V., Stoffolano, J., Jr., & DeAngelis, K. M. (2022, August 31).
TL;DR:
The results suggest that chitosan-amended diet alters the house fly microbiome resulting in higher fly mortality, and Gut microbiome changes appear to result from chitinolytic bacteria becoming more relatively abundant.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(OpenAlex)
Source: ORCID
Added: September 18, 2022
2022 journal article
Reciprocal Inclusion of Microbiomes and Environmental Justice Contributes Solutions to Global Environmental Health Challenges
MSystems, 7(3).
Ed(s): S. Ishaq
author keywords: microbiome; environmental microbes; environmental justice; social equity; global change; stewardship; research ethics; microbiome stewardship
MeSH headings : Humans; Environmental Justice; Environmental Health; Microbiota
Source: ORCID
Added: September 19, 2022
2022 journal article
Streptomyces apricus sp. nov., isolated from soil
International Journal of Systematic and Evolutionary Microbiology, 72(1).
author keywords: Streptomyces; soil; species description; apricus
MeSH headings : Bacterial Typing Techniques; Base Composition; DNA, Bacterial / genetics; Fatty Acids / chemistry; Phospholipids / chemistry; Phylogeny; RNA, Ribosomal, 16S / genetics; Sequence Analysis, DNA; Soil Microbiology; Streptomyces / classification; Streptomyces / isolation & purification; Wisconsin
TL;DR:
The results of the polyphasic study confirmed that this isolate represents a novel species of the genus StrePTomyces, for which the name Streptomyces apricus sp.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
15. Life on Land
(OpenAlex)
Source: ORCID
Added: September 18, 2022
2021 article
A non-adaptive demographic mechanism for genome expansion in <i>Streptomyces</i>
Choudoir, M. J., Järvenpää, M. J., Marttinen, P., & Buckley, D. H. (2021, January 11). (Vol. 1). Vol. 1.
TL;DR:
It is shown that non-adaptive evolutionary phenomena can explain expansion of microbial genome size, and suggested that this mechanism might explain why so many bacteria with large genomes can be found in soil.
(via Semantic Scholar)
Source: ORCID
Added: September 19, 2022
2021 journal article
Introducing the Microbes and Social Equity Working Group: Considering the Microbial Components of Social, Environmental, and Health Justice
MSystems, 6(4).
Ed(s): J. Gilbert
author keywords: biopolitics; health disparities; social determinants of health; structural determinants of health; integrated research; microbiomes
TL;DR:
Opportunities for integrating microbiology and social equity work through broadening education and training; diversifying research topics, methods, and perspectives; and advocating for evidence-based public policy that supports sustainable, equitable, and microbial wealth for all are outlined.
(via Semantic Scholar)
Source: ORCID
Added: September 18, 2022
2020 journal article
Volatile organic compounds from leaf litter decomposition alter soil microbial communities and carbon dynamics
Ecology.
author keywords: ammonium; carbon cycle; carbon sequestration; microbial biomass; microbial diversity; mineral associated organic matter; nitrate; particulate organic matter; stable isotope probing; target gene sequencing; VOC
MeSH headings : Carbon; Microbiota; Plant Leaves; Soil; Soil Microbiology; Volatile Organic Compounds
TL;DR:
This work used a 99-day microcosm experiment to track VOCs produced during microbial decomposition of 13 C-labeled leaf litter into soil carbon fractions where the decomposing litters were only sharing headspace with the soil samples, thus preventing direct contact and aqueous movement of litter carbon.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
15. Life on Land
(OpenAlex)
Source: ORCID
Added: September 18, 2022
2019 journal article
A Phylogenetic and Functional Perspective on Volatile Organic Compound Production by Actinobacteria
MSystems, 4(2).
Ed(s): K. Whiteson
author keywords: Actinobacteria; VOC; actinomycetes; microbial interactions; natural products; volatile organic compounds
TL;DR:
A strong taxonomic and phylogenetic signal for VOC profiles is observed, suggesting their role in finer-scale patterns of ecological diversity, and their effects on growth rates of both pathogenic and nonpathogenic pseudomonad strains are investigated.
(via Semantic Scholar)
Source: ORCID
Added: September 18, 2022
2018 journal article
Diversification of Secondary Metabolite Biosynthetic Gene Clusters Coincides with Lineage Divergence in <em>Streptomyces</em>
Antibiotics, 7(1), 12.
author keywords: Streptomyces; biogeography; comparative genomics; diversification; secondary metabolite biosynthetic gene clusters; SMGC; natural products
TL;DR:
It is shown that changes in SMGC diversity between the sister-taxa were driven primarily by gene acquisition and deletion events, and these changes were associated with an overall change in genome size which accompanied lineage divergence.
(via Semantic Scholar)
Source: ORCID
Added: September 18, 2022
2018 journal article
Phylogenetic conservatism of thermal traits explains dispersal limitation and genomic differentiation of Streptomyces sister-taxa
The ISME Journal, 12(9), 2176–2186.
MeSH headings : Climate; Gene Flow; Genome, Bacterial; Genomics; Phenotype; Phylogeny; Phylogeography; Streptomyces / classification; Streptomyces / genetics; Streptomyces / isolation & purification; Temperature
TL;DR:
Data provide further support for the hypothesis that the Streptomyces latitudinal diversity gradient was formed as a result of historical demographic processes defined by dispersal limitation and driven by paleoclimate dynamics.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
13. Climate Action
(OpenAlex)
Source: ORCID
Added: September 18, 2022
2018 journal article
Volatile Organic Compound Emissions From Soil Following Wetting Events
Journal of Geophysical Research: Biogeosciences.
author keywords: volatile organic compounds; soil; rewetting pulse; carbon emission rates; carbon flux; carbon dynamics; birch effect
Source: ORCID
Added: September 18, 2022
2017 journal article
Genome Surfing As Driver of Microbial Genomic Diversity
Trends in Microbiology, 25(8), 624–636.
MeSH headings : Gene Transfer, Horizontal; Genetic Variation; Genome, Microbial; Genomics; Models, Genetic; Phylogeny; Streptomyces / genetics
TL;DR:
It is proposed that demographic range expansion of a microbial population capable of horizontal gene exchange can result in genome surfing, a mechanism that can cause widespread increase in the pan-genome frequency of genes acquired by horizontal gene Exchange.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
13. Climate Action
(OpenAlex)
Source: ORCID
Added: September 18, 2022
2017 journal article
Variation in range size and dispersal capabilities of microbial taxa
ECOLOGY, 99(2), 322–334.
Contributors: * , A. Barberán *, H. Menninger n, R. Dunn n & N. Fierer *
author keywords: biogeography; dispersal; dust-associated microbes; geographic range size; microbial dispersal; microbiology
MeSH headings : Animals; Archaea; Bacteria / classification; Ecosystem; Plants
TL;DR:
Most microorganisms have small ranges and few have large ranges, a pattern similar to the range size distributions commonly observed for macrobes, which provides insight into the factors shaping patterns of microbial biogeography.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
15. Life on Land
(Web of Science)
Sources: ORCID, Web Of Science, NC State University Libraries
Added: August 6, 2018
2016 journal article
A Latitudinal Diversity Gradient in Terrestrial Bacteria of the Genus Streptomyces
MBio, 7(2), e02200–15.
Source: ORCID
Added: September 18, 2022
2016 journal article
Contributions of ancestral inter-species recombination to the genetic diversity of extant Streptomyces lineages
The ISME Journal.
Source: ORCID
Added: September 18, 2022
2016 journal article
Latitude delineates patterns of biogeography in terrestrial Streptomyces
Environmental Microbiology, 18, 4931–4945.
MeSH headings : Biodiversity; Biological Evolution; Ecosystem; Gene Flow / genetics; Genetics, Population; Genome, Bacterial / genetics; Multilocus Sequence Typing; Phylogeography; Soil; Streptomyces / classification; Streptomyces / genetics
UN Sustainable Development Goal Categories
15. Life on Land
(OpenAlex)
Source: ORCID
Added: September 18, 2022
2012 journal article
Grappling with Proteus: population level approaches to understanding microbial diversity
Frontiers in Microbiology, 3, 336.
Source: ORCID
Added: September 18, 2022
2010 journal article
Sequence diversity of genes encoding botulinum neurotoxin type F
Applied and Environmental Microbiology, 76(14), 4805–4812.
Source: ORCID
Added: September 18, 2022
2009 journal article
Correlation between transcript abundance of the RB gene and the level of the RB-mediated late blight resistance in potato
Molecular Plant-Microbe Interactions, 22(4), 447–455.
Source: ORCID
Added: September 18, 2022
Employment
Updated: September 18th, 2022 17:02
2022 - present
North Carolina State University Raleigh, Raleigh, US
Assistant Professor and Extension Specialist
Plant and Microbial Biology
2020 - 2022
University of Massachusetts MA, MA, US
Department of Microbiology
2016 - 2018
University of Colorado Boulder Boulder, CO, US
CIRES
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