David M Bird

Works (79)

Updated: March 3rd, 2025 10:51

2021 journal article

Toward genetic modification of plant-parasitic nematodes: delivery of macromolecules to adults and expression of exogenous mRNA in second stage juveniles

G3-GENES GENOMES GENETICS, 11(2).

By: O. Kranse*, H. Beasley*, S. Adams *, A. Pires-daSilva *, C. Bell *, C. Lilley *, P. Urwin *, D. Bird n  ...

author keywords: plant-parasitic nematodes; transient expression; genetic modification; lipofection; transformation; germline
MeSH headings : Animals; Arabidopsis / genetics; Male; Plant Diseases; RNA Interference; RNA, Messenger; Tylenchoidea / genetics
TL;DR: Some of the foundational biology required to deliver a functional genetic tool kit in plant-parasitic nematodes are developed, and the gonads of male Heterodera schachtii and Meloidogyne hapla are characterised in the context of spermatogenesis. (via Semantic Scholar)
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2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
Sources: Web Of Science, NC State University Libraries
Added: June 10, 2021

2020 journal article

A Single, Shared Triploidy in Three Species of Parasitic Nematodes

G3-GENES GENOMES GENETICS, 10(1), 225–233.

By: A. Schoonmaker*, Y. Hao*, D. Bird*  & G. Conant n 

Contributors: A. Schoonmaker*, Y. Hao*, D. Bird*  & G. Conant n 

author keywords: polyploidy; evolutionary model; root-knot nematode
MeSH headings : Animals; Evolution, Molecular; Genome, Helminth; Phylogeny; Triploidy; Tylenchoidea / classification; Tylenchoidea / genetics
TL;DR: Three root-knot nematodes of the genus Meloidogyne descend from a single common hybridization event that yielded triplicated genomes with three distinguishable subgenomes, and ancestral loci where two of the three gene copies have been lost are less likely to have orthologs in Caenorhabditis elegans that are lethal when knocked down than are ancestral locu with surviving duplicate copies. (via Semantic Scholar)
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2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
15. Life on Land (OpenAlex)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: January 21, 2020

2020 journal article

Bacterial Community Structure Dynamics in Meloidogyne incognita-Infected Roots and Its Role in Worm-Microbiome Interactions

MSPHERE, 5(4).

By: T. Yergaliyev *, R. Alexander-Shani*, H. Dimerets*, S. Pivonia*, D. Bird n , S. Rachmilevitch *, A. Szitenberg *

author keywords: Meloidogyne incognita; bacterial succession; microbiome; plant-microbe interactions; root knot nematode
MeSH headings : Animals; Bacteria / classification; Bacteria / metabolism; DNA Barcoding, Taxonomic; Genetic Variation; Host Microbial Interactions; Microbiota; Phylogeny; Plant Roots / microbiology; Plant Roots / parasitology; RNA, Ribosomal, 16S / genetics; Rhizosphere; Soil; Soil Microbiology; Tylenchoidea / microbiology; Tylenchoidea / physiology
TL;DR: It is indicated that a structured community develops in the root, in which gall communities diverge from root segments lacking a gall, and that this structure is maintained throughout the crop season. (via Semantic Scholar)
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2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
Sources: Web Of Science, NC State University Libraries
Added: September 28, 2020

2020 journal article

Infection by cyst nematodes induces rapid remodelling of developing xylem vessels in wheat roots

SCIENTIFIC REPORTS, 10(1).

By: K. Levin *, M. Tucker *, D. Bird n  & D. Mather *

MeSH headings : Animals; Cell Wall / metabolism; Cysts / metabolism; Gene Expression Regulation, Plant / genetics; Giant Cells / cytology; Infections; Microscopy, Confocal / methods; Nematoda / metabolism; Nematode Infections / metabolism; Nematode Infections / physiopathology; Plant Diseases / parasitology; Plant Roots / metabolism; Plant Roots / parasitology; Triticum / metabolism; Triticum / parasitology; Tylenchoidea / parasitology; Tylenchoidea / physiology; Xylem / cytology
TL;DR: By interfering with a developmental program that normally leads to programmed cell death, H. avenae may permit xylem vessel elements to remain alive for later exploitation by the parasite. (via Semantic Scholar)
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2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
Sources: Web Of Science, NC State University Libraries
Added: July 20, 2020

2018 journal article

Identification of Cytauxzoon felis antigens via protein microarray and assessment of expression library immunization against cytauxzoonosis

CLINICAL PROTEOMICS, 15(1).

By: M. Schreeg n, H. Marr n, J. Tarigo n, M. Sherrill*, H. Outi*, E. Scholl n, D. Bird n , A. Vigil* ...

Contributors: M. Schreeg n, H. Marr n, J. Tarigo n, M. Sherrill*, H. Outi*, E. Scholl n, D. Bird n , A. Vigil* ...

author keywords: Cytauxzoonosis; Cytauxzoon felis; Expression library immunization; Protein microarray; Piroplasmid; Vaccine
TL;DR: Protein microarray facilitated high-throughput identification of novel antigens, substantially increasing the pool of characterized C. felis Antigens and should be considered for development of C.Felis vaccines, diagnostics, and therapeutics. (via Semantic Scholar)
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Sources: Web Of Science, ORCID, NC State University Libraries
Added: January 14, 2019

2017 journal article

Disparate gain and loss of parasitic abilities among nematode lineages

PLOS ONE, 12(9).

By: M. Holterman *, A. Karegar *, P. Mooijman*, H. Megen*, S. Elsen *, M. Vervoort*, C. Quist *, G. Karssen ...

Contributors: M. Holterman *, A. Karegar *, P. Mooijman*, H. Van Megen*, S. Van Den Elsen *, M. Vervoort*, C. Quist *, G. Karssen ...

MeSH headings : Animals; Evolution, Molecular; Host-Parasite Interactions; Nematoda / classification; Nematoda / physiology; Nematoda / virology; Phylogeny; Plants / microbiology; Plants / parasitology
TL;DR: This first molecular characterisation of numerous basal and supposedly harmless plant parasites as well as their non-parasitic relatives was able to generate a comprehensive molecular framework that allows for the reconstruction of trophic diversification for a complete phylum. (via Semantic Scholar)
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2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
15. Life on Land (OpenAlex)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018

2017 journal article

Networks Underpinning Symbiosis Revealed Through Cross-Species eQTL Mapping

Genetics, 206(4), 2175–2184.

By: Y. Guo n, S. Fudali n, J. Gimeno n, P. DiGennaro  n, S. Chang n, V. Williamson *, D. Bird n , D. Nielsen n 

Contributors: Y. Guo n, S. Fudali n, J. Gimeno n, P. Digennaro  n, S. Chang n, V. Williamson *, D. Bird n , D. Nielsen n 

author keywords: transspecies; trans-eQTL; host-pathogen interaction; symbiosis; RNA-Seq
MeSH headings : Animals; Chromosome Mapping / methods; Gene Regulatory Networks; Genetic Pleiotropy; Helminth Proteins / genetics; Helminth Proteins / metabolism; Medicago / genetics; Medicago / parasitology; Plant Proteins / genetics; Plant Proteins / metabolism; Polymorphism, Genetic; Quantitative Trait Loci; Symbiosis / genetics; Transcription Factors / genetics; Transcription Factors / metabolism; Tylenchoidea / genetics; Tylenchoidea / pathogenicity
TL;DR: An expression quantitative trait locus (eQTL) mapping-based approach to identify cause-and-effect relationships between genes from two partners engaged in an interspecific interaction is developed and applied to data from a Salmonella infection study, successfully identifying polymorphisms in the human genome affecting bacterial expression. (via Semantic Scholar)
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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, ORCID, NC State University Libraries
Added: August 6, 2018

2016 journal article

Genetic Drift, Not Life History or RNAi, Determine Long-Term Evolution of Transposable Elements

GENOME BIOLOGY AND EVOLUTION, 8(9), 2964–2978.

By: A. Szitenberg *, S. Cha  n, C. Opperman n, D. Bird n , M. Blaxter * & D. Lunt *

Contributors: A. Szitenberg *, S. Cha  n, C. Opperman n, D. Bird n , M. Blaxter * & D. Lunt *

author keywords: nematoda; transposable elements evolution; RNA interference; mating system; parasitism
TL;DR: Although statistical power to detect selection is demonstrated, there is no evidence that variation in these factors influence genomic TE loads across extended periods of time, and the effects of genetic drift appear to persist and control TE variation among species. (via Semantic Scholar)
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Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018

2016 journal article

Mitochondrial Genome Sequences and Structures Aid in the Resolution of Piroplasmida phylogeny

PLOS ONE, 11(11).

By: M. Schreeg n, H. Marr n, J. Tarigo n, L. Cohn *, D. Bird n , E. Scholl n, M. Levy n, B. Wiegmann n , A. Birkenheuer n 

Contributors: M. Schreeg n, H. Marr n, J. Tarigo n, L. Cohn *, D. Bird n , E. Scholl n, M. Levy n, B. Wiegmann n , A. Birkenheuer n 

MeSH headings : DNA, Protozoan / genetics; Genome, Mitochondrial; Humans; Phylogeny; Piroplasmida / classification; Piroplasmida / genetics; Protozoan Infections / parasitology
TL;DR: Phylogenetic analysis of concatenated mitochondrial and 18S sequences as well as cox1 amino acid sequence identified five distinct Piroplasmida groups, each of which possesses a unique mitochondrial genome structure. (via Semantic Scholar)
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Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018

2016 journal article

PCR amplification of a multi-copy mitochondrial gene (cox3) improves detection of Cytauxzoon felis infection as compared to a ribosomal gene (18S)

VETERINARY PARASITOLOGY, 225, 123–130.

By: M. Schreeg n, H. Marr n, E. Griffith n , J. Tarigo n, D. Bird n , M. Reichard *, L. Cohn *, M. Levy n, A. Birkenheuer n 

Contributors: M. Schreeg n, H. Marr n, E. Griffith n , J. Tarigo n, D. Bird n , M. Reichard *, L. Cohn *, M. Levy n, A. Birkenheuer n 

author keywords: Cytauxzoonosis; Cytochrome c oxidase; Piroplasmosis; Mitochondria; Feline; Molecular diagnostic assays
MeSH headings : Animals; Cat Diseases / diagnosis; Cats; DNA, Protozoan / blood; DNA, Protozoan / genetics; Electron Transport Complex IV / genetics; Gene Dosage; Haemosporida / genetics; Polymerase Chain Reaction / standards; Polymerase Chain Reaction / veterinary; Protozoan Infections, Animal / diagnosis; RNA, Ribosomal, 18S / genetics; Sensitivity and Specificity
TL;DR: A PCR assay targeting the C. felis mitochondrial gene cytochrome c oxidase subunit III (cox3) is designed and demonstrated that the cox3 PCR can detect as low as 1 copy of DNA target and can detect C.Felis during early infections. (via Semantic Scholar)
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3. Good Health and Well-being (Web of Science; OpenAlex)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018

2015 book

Exploiting solved genomes of plant-parasitic nematodes to understand parasitism

In Advances in Botanical Research (Vol. 73, pp. 241–258).

By: D. Bird n , V. Williamson * & C. Opperman  n

Contributors: D. Bird n , V. Williamson * & C. Opperman  n

TL;DR: Comparative genomics has confirmed much of what had been deduced from expressed sequence tag sequencing, and expanded the understanding of the extent of horizontal gene transfer as a source of novelty during the evolution of parasitism. (via Semantic Scholar)
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2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
Source: ORCID
Added: January 30, 2020

2015 journal article

Signatures of adaptation to plant parasitism in nematode genomes

Parasitology, 142(S1), S71–S84.

By: D. Bird n , J. Jones *, C. Opperman n, T. Kikuchi * & E. Danchin *

Contributors: D. Bird n , J. Jones *, C. Opperman n, T. Kikuchi * & E. Danchin *

author keywords: nematodes; genomes; plant parasitism; adaptation; convergence
MeSH headings : Adaptation, Physiological; Animals; Genomics; Host-Parasite Interactions; Nematoda / genetics; Nematoda / physiology; Phylogeny; Plants / parasitology
TL;DR: Overall, nematodes appear to have developed convergent genomic solutions to adapt to plant parasitism. (via Semantic Scholar)
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UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science; OpenAlex)
13. Climate Action (Web of Science)
Sources: Web Of Science, ORCID, NC State University Libraries, Crossref
Added: August 6, 2018

2015 journal article

The plant parasite Pratylenchus coffeae carries a minimal nematode genome

NEMATOLOGY, 17(6), 621–637.

By: M. Burke  n, E. Scholl n, D. Bird n , J. Schaff n, S. Colman*, R. Crowell*, S. Diener*, O. Gordon* ...

Contributors: M. Burke  n, E. Scholl n, D. Bird  n, J. Schaff n, S. Colman*, R. Crowell*, S. Diener*, O. Gordon* ...

author keywords: Caenorhabditis elegans; lesion nematode; Meloidogyne hapla; migratory endoparasitic nematodes; nematode evolution; protein encoding genes
TL;DR: The genome sequence of the lesion nematode, Pratylenchus coffeae, a significant pest of banana and other staple crops in tropical and sub-tropical regions worldwide is reported, and the P. coffeaegenome sequence may help to define timelines related to evolution of parasitism amongst nematodes. (via Semantic Scholar)
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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, ORCID, NC State University Libraries
Added: August 6, 2018

2013 journal article

A Novel Candidate Vaccine for Cytauxzoonosis Inferred from Comparative Apicomplexan Genomics

PLOS ONE, 8(8).

By: J. Tarigo n, E. Scholl n, D. Bird n , C. Brown *, L. Cohn *, G. Dean  n, M. Levy n, D. Doolan * ...

Contributors: J. Tarigo n, E. Scholl n, D. Bird  n, C. Brown *, L. Cohn *, G. Dean  n, M. Levy n, D. Doolan * ...

MeSH headings : Animals; Antigens, Protozoan / genetics; Antigens, Protozoan / immunology; Cat Diseases / immunology; Cat Diseases / parasitology; Cat Diseases / prevention & control; Cats; Cattle; Conserved Sequence; Genome, Protozoan; Genomics; Immune Sera / immunology; Piroplasmida / genetics; Piroplasmida / immunology; Protozoan Infections, Animal / immunology; Protozoan Infections, Animal / parasitology; Protozoan Infections, Animal / prevention & control; Protozoan Proteins / genetics; Protozoan Proteins / immunology; Protozoan Vaccines / genetics; Protozoan Vaccines / immunology; Recombinant Proteins / genetics; Recombinant Proteins / immunology; Synteny; Theileria parva / genetics; Theileria parva / immunology
TL;DR: Comparative genomics is used to computationally and experimentally interpret the C. felis genome to identify a novel candidate vaccine antigen for cytauxzoonosis, and this approach emphasizes the use of comparative genomics as an accelerated path to developing vaccines against experimentally intractable pathogens. (via Semantic Scholar)
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3. Good Health and Well-being (Web of Science; OpenAlex)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018

2013 journal article

Solution NMR studies of the plant peptide hormone CEP inform function

FEBS Letters, 587(24), 3979–3985.

By: B. Bobay  n, P. Digennaro  n, E. Scholl n, N. Imin *, M. Djordjevic * & D. McK Bird

Contributors: B. Bobay  n, P. Digennaro  n, E. Scholl n, N. Imin *, M. Djordjevic * & D. McK Bird

author keywords: NMR; Molecular dynamic; CEP; Root-knot nematode; Peptide; CLE; Meloidogyne
MeSH headings : Amino Acid Sequence; Animals; Genome, Plant / physiology; Host-Parasite Interactions / physiology; Models, Molecular; Molecular Dynamics Simulation; Molecular Mimicry / physiology; Molecular Sequence Data; Nuclear Magnetic Resonance, Biomolecular; Plant Diseases / genetics; Plant Diseases / parasitology; Plant Growth Regulators / chemistry; Plant Growth Regulators / physiology; Plants / genetics; Plants / metabolism; Root Nodules, Plant / metabolism; Root Nodules, Plant / parasitology; Sequence Homology, Amino Acid; Tylenchoidea / genetics; Tylenchoidea / metabolism
TL;DR: The first NMR structures of CEP are presented and it is shown that root‐knot nematode also encodes CEP, presumably to mimic plant CEP as part of their stereotypic, parasitic interaction with vascular plants. (via Semantic Scholar)
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2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
Source: ORCID
Added: January 30, 2020

2012 journal article

A sequence-anchored linkage map of the plant-parasitic nematode meloidogyne hapla reveals exceptionally high genome-wide recombination

G3: Genes, Genomes, Genetics, 2(7), 815–824.

By: V. Thomas*, S. Fudali*, J. Schaff*, Q. Liu *, E. Scholl*, C. Opperman *, D. Bird n , V. Williamson *

Contributors: V. Thomas*, S. Fudali*, J. Schaff*, Q. Liu *, E. Scholl*, C. Opperman *, D. Bird n , V. Williamson *

author keywords: root-knot nematode; SNP; integrated map
MeSH headings : Amplified Fragment Length Polymorphism Analysis; Animals; Cellulase / classification; Chromosome Mapping; Contig Mapping; Crosses, Genetic; Genetic Linkage; Genetic Variation; Genome, Helminth; Genome, Plant; Genotype; Meiosis; Phylogeny; Plants / genetics; Plants / parasitology; Polymorphism, Single Nucleotide; Polysaccharide-Lyases / classification; Recombination, Genetic; Tylenchoidea / genetics
TL;DR: This work presents the most comprehensive linkage map of a parasitic nematode to date and, together with genomic and transcript sequence resources, empowers M. hapla as a tractable model for analyses of genome organization and the inheritance of phenotypic traits. (via Semantic Scholar)
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UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
Source: ORCID
Added: January 30, 2020

2011 journal article

Abstracts of NEMASYM: The Third Nematode-Bacteria Symbioses Research Coordination Network Meeting

Symbiosis, 55(3), 97–109.

By: S. Stock *, D. Bird n , E. Ghedin * & H. Goodrich-Blair *

TL;DR: This project has focused on one of the most common eukaryote-prokaryote interactions: that between nematodes and bacteria, and the ubiquity and diversity of nematode-bacterium symbioses make them an excellent model to understand the key questions in symbiosis. (via Semantic Scholar)
Sources: Crossref, NC State University Libraries
Added: February 12, 2020

2011 article

Computational and phylogenetic validation of nematode horizontal gene transfer

Scholl, E. H., & Bird, D. M. K. (2011, February 22). BMC BIOLOGY, Vol. 9.

By: E. Scholl n & D. Bird n 

Contributors: E. Scholl n & D. Bird n 

MeSH headings : Animals; Cellulase / genetics; Evolution, Molecular; Gene Transfer, Horizontal; Genes, Helminth; Molecular Sequence Data; Nematoda / classification; Nematoda / genetics; Phylogeny
TL;DR: A detailed phylogenetic analysis of cellulase genes in the free-living nematode Pristionchus pacificus at the species, genus and family levels substantiates the hypothesis that such transfer has been a driving force in the evolution of niche specificity. (via Semantic Scholar)
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UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018

2011 journal article

RNAi Effector Diversity in Nematodes

PLOS NEGLECTED TROPICAL DISEASES, 5(6).

By: J. Dalzell *, P. McVeigh *, N. Warnock*, M. Mitreva *, D. Bird n , P. Abad *, C. Fleming *, T. Day * ...

Contributors: J. Dalzell *, P. McVeigh *, N. Warnock*, M. Mitreva *, D. Bird n , P. Abad *, C. Fleming *, T. Day * ...

MeSH headings : Animals; Conserved Sequence; Gene Expression Profiling; Helminth Proteins / biosynthesis; Helminth Proteins / genetics; Nematoda / genetics; RNA Interference
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Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018

2010 journal article

Proteomic and Bioinformatic Analysis of the Root-Knot Nematode Meloidogyne hapla: The Basis for Plant Parasitism

Journal of Proteome Research, 9(10), 5370–5381.

By: F. Mbeunkui n, E. Scholl n, C. Opperman n, M. Goshe n & D. Bird n 

Contributors: F. Mbeunkui n, E. Scholl n, C. Opperman n, M. Goshe n & D. Bird n 

author keywords: LC/MSE; plant-parasite; nematode; data-independent acquisition; computational proteome
MeSH headings : Animals; Chromatography, Liquid; Computational Biology / methods; Databases, Protein; Genome, Helminth / genetics; Helminth Proteins / genetics; Helminth Proteins / metabolism; Humans; Internet; Plant Roots / parasitology; Proteomics / methods; Tandem Mass Spectrometry; Tylenchoidea / genetics; Tylenchoidea / metabolism
TL;DR: To experimentally confirm the HapPep3 assignments using proteomics, a data-independent LC/MS(E) analysis to M. hapla protein extracts fractionated by SDS-PAGE was applied, and it was concluded that the identified proteins reflect a true and unbiased sampling of Happep3. (via Semantic Scholar)
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15. Life on Land (OpenAlex)
Sources: Web Of Science, ORCID, NC State University Libraries, Crossref
Added: August 6, 2018

2010 review

Unifying Themes in Microbial Associations with Animal and Plant Hosts Described Using the Gene Ontology

[Review of ]. MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS, 74(4), 479–503.

By: T. Torto-Alalibo*, C. Collmer*, M. Gwinn-Giglio*, M. Lindeberg *, S. Meng n, M. Chibucos *, T. Tseng *, J. Lomax * ...

Contributors: T. Torto-Alalibo*, C. Collmer*, M. Gwinn-Giglio*, M. Lindeberg *, S. Meng n, M. Chibucos *, T. Tseng *, J. Lomax * ...

MeSH headings : Animals; Bacteria / genetics; Bacteria / metabolism; Bacterial Physiological Phenomena; Cell Adhesion; Computational Biology / methods; Fungi / genetics; Fungi / metabolism; Fungi / physiology; Host-Pathogen Interactions / genetics; Host-Pathogen Interactions / immunology; Plants / immunology; Plants / microbiology; Protein Transport; Symbiosis / genetics; Symbiosis / immunology; Virulence Factors
TL;DR: Some unifying themes common to diverse host-microbe associations are reviewed and areas where new terms need to be developed are highlighted, an ongoing process that should involve the whole community. (via Semantic Scholar)
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UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018

2009 review

Common and contrasting themes in host cell-targeted effectors from bacterial, fungal, oomycete and nematode plant symbionts described using the Gene Ontology

[Review of ]. BMC MICROBIOLOGY, 9(SUPPL. 1).

By: T. Torto-Alalibo*, C. Collmer*, M. Lindeberg *, D. Bird n , A. Collmer * & B. Tyler *

Contributors: T. Torto-Alalibo*, C. Collmer*, M. Lindeberg *, D. Bird n , A. Collmer * & B. Tyler *

MeSH headings : Animals; Bacteria / metabolism; Biological Transport; Fungi / metabolism; Host-Pathogen Interactions; Nematoda / metabolism; Oomycetes / metabolism; Plant Diseases / microbiology; Plants / metabolism; Plants / microbiology; Symbiosis; Terminology as Topic; Vocabulary, Controlled
TL;DR: This mini-review will summarize both similarities and differences in effectors and effector delivery systems found in diverse plant-associated symbionts as well as how these are described with Plant-Associated Microbe Gene Ontology (PAMGO) terms. (via Semantic Scholar)
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UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science; OpenAlex)
13. Climate Action (Web of Science)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018

2009 book

Genomic analysis of the root-knot nematode genome

In Plant Cell Monographs (Vol. 15, pp. 221–237).

By: C. Opperman  n, D. Bird n  & J. Schaff n

Contributors: C. Opperman  n, D. Bird n  & J. Schaff n

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2. Zero Hunger (OpenAlex)
Source: ORCID
Added: January 30, 2020

2009 book

Plant infection by root-knot nematode

In Plant Cell Monographs (Vol. 15, pp. 1–13).

By: D. Bird n , C. Opperman  n & V. Williamson *

Contributors: D. Bird n , C. Opperman  n & V. Williamson *

TL;DR: The role of signaling molecules and their interplay with nematode development from hatch through primary interaction with the plant is considered. (via Semantic Scholar)
Source: ORCID
Added: January 30, 2020

2009 article

The Genomes of Root-Knot Nematodes

ANNUAL REVIEW OF PHYTOPATHOLOGY, Vol. 47, pp. 333–351.

By: D. Bird n , V. Williamson *, P. Abad *, J. McCarter *, E. Danchin *, P. Castagnone-Sereno *, C. Opperman n

Contributors: D. McK Bird, V. Williamson *, P. Abad *, J. McCarter *, E. Danchin *, P. Castagnone-Sereno *, C. Opperman n

author keywords: asexual reproduction; genetics; horizontal gene transfer; Meloidogyne; plant parasite
MeSH headings : Animals; Biological Evolution; Gene Transfer, Horizontal; Genome, Helminth; Nematoda / genetics; Plant Diseases / genetics; Plant Roots / genetics
TL;DR: Sequencing revealed that Meloidogyne hapla, a diploid that reproduces by facultative, meiotic parthenogenesis, encodes approximately 14,200 genes in a compact, 54 Mpb genome, which is the smallest metazoan genome completed to date and suggests new routes to their control. (via Semantic Scholar)
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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, ORCID, NC State University Libraries
Added: August 6, 2018

2009 review

The secret(ion) life of worms

[Review of ]. GENOME BIOLOGY, 10(1).

By: D. Bird n  & C. Opperman n

MeSH headings : Animals; Helminth Proteins / analysis; Helminth Proteins / metabolism; Host-Parasite Interactions / immunology; Humans; Nematoda / chemistry; Nematoda / immunology; Nematoda / metabolism; Plants / immunology; Plants / parasitology; Proteomics
TL;DR: Tandem mass spectrographic analysis of the secreted proteins of plant- and human-parasitic nematodes reveals molecular similarities that reflect the shared need to counter host defenses. (via Semantic Scholar)
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UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
Source: Web Of Science
Added: August 6, 2018

2009 journal article

The secret(ion) life of worms.

Genome Biology, 10(1), 205. http://www.scopus.com/inward/record.url?eid=2-s2.0-69449107507&partnerID=MN8TOARS

By: D. Bird  & C. Opperman

Contributors: D. Bird  & C. Opperman

www.scopus.com
Source: ORCID
Added: January 30, 2020

2008 journal article

A sequence-anchored genetic linkage map for the moss, Physcomitrella patens

Plant Journal, 56(5), 840–854.

By: J. Schaff, F. Mbeunkui, K. Blackburn, D. Bird  & M. Goshe

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

2008 journal article

SILIP: A novel stable isotope labeling method for in planta quantitative proteomic analysis

Plant Journal, 56(5), 840–854.

By: J. Schaff n, F. Mbeunkui n, K. Blackburn  n, D. Bird  n & M. Goshe  n

Contributors: J. Schaff n, F. Mbeunkui n, K. Blackburn  n, D. Bird  n & M. Goshe  n

author keywords: plant proteomics; quantitative analysis; mass spectrometry; liquid chromatography; isotope-coded; isotope ratio
MeSH headings : Chromatography, Liquid; Isotope Labeling / methods; Solanum lycopersicum / metabolism; Nitrogen / metabolism; Nitrogen Isotopes / metabolism; Phenotype; Plant Proteins / metabolism; Proteomics / methods; Soil; Tandem Mass Spectrometry
TL;DR: SILIP (stable isotope labeling in planta) is developed using tomato plants as a method that allows soil-grown plants to be efficiently labeled using a 14N/15N isotope coding strategy, and thus provides a new quantitative proteomics tool to study both plant and plant-microorganism systems. (via Semantic Scholar)
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Source: ORCID
Added: January 30, 2020

2008 journal article

Sequence and genetic map of Meloidogyne hapla: A compact nematode genome for plant parasitism

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 105(39), 14802–14807.

By: C. Opperman n, D. Bird n , V. Williamson *, D. Rokhsar *, M. Burke n, J. Cohn n, J. Cromer n, S. Diener n ...

Contributors: C. Opperman n, D. Bird n , V. Williamson *, D. Rokhsar *, M. Burke n, J. Cohn n, J. Cromer n, S. Diener n ...

author keywords: compaction; dauer; development; horizontal gene transfer; gene
MeSH headings : Animals; Base Sequence; Caenorhabditis elegans / genetics; Chromosome Mapping; Evolution, Molecular; Gene Duplication; Gene Transfer, Horizontal; Genome, Helminth; Host-Parasite Interactions / genetics; Molecular Sequence Data; Multigene Family; Operon; Phylogeny; Plants / parasitology; Synteny; Tylenchoidea / genetics
TL;DR: Meloidogyne hapla is established as a tractable model plant-parasitic nematode amenable to forward and reverse genetics, and a complete genome sequence is presented that defines a platform to elucidate mechanisms of parasitism by what is the largest uncontrolled group of plant pathogens worldwide. (via Semantic Scholar)
UN Sustainable Development Goals Color Wheel
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, ORCID, NC State University Libraries
Added: August 6, 2018

2007 journal article

Comprehensive Transcriptome Profiling in Tomato Reveals a Role for Glycosyltransferase in Mi-Mediated Nematode Resistance

Plant Physiology, 144(2), 1079–1092.

By: J. Schaff n, D. Nielsen n , C. Smith n, E. Scholl n & D. Bird n 

Contributors: J. Schaff n, D. Nielsen n , C. Smith n, E. Scholl n & D. Bird  n

MeSH headings : Animals; Feeding Behavior / physiology; Gene Expression; Gene Expression Profiling; Gene Expression Regulation, Plant; Gene Silencing; Genomics; Glycosyltransferases / metabolism; Host-Parasite Interactions / physiology; Solanum lycopersicum / enzymology; Solanum lycopersicum / genetics; Solanum lycopersicum / parasitology; Oligonucleotide Array Sequence Analysis; Plant Roots / enzymology; Plant Roots / metabolism; Plant Roots / parasitology; Reproduction / physiology; Tylenchoidea / physiology
TL;DR: The root transcriptome of the resistant and susceptible cultivars ‘Motelle’ and ‘Moneymaker’ is interrogated, providing a picture of global gene expression changes in roots during compatible and incompatible associations with RKN, and point to candidates for further investigation. (via Semantic Scholar)
UN Sustainable Development Goals Color Wheel
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, ORCID, NC State University Libraries, Crossref
Added: August 6, 2018

2007 journal article

Divergent evolution of arrested development in the dauer stage of Caenorhabditis elegans and the infective stage of Heterodera glycines

GENOME BIOLOGY, 8(10).

By: A. Elling *, M. Mitreva *, J. Recknor*, X. Gai *, J. Martin *, T. Maier*, J. McDermott*, T. Hewezi * ...

Contributors: A. Elling *, M. Mitreva *, J. Recknor*, X. Gai *, J. Martin *, T. Maier*, J. McDermott*, T. Hewezi * ...

MeSH headings : Animals; Caenorhabditis elegans / metabolism; Computational Biology; Expressed Sequence Tags; Gene Expression Profiling; Gene Expression Regulation, Developmental; Gene Library; Larva / metabolism; Oligonucleotide Array Sequence Analysis; Reverse Transcriptase Polymerase Chain Reaction; Sequence Analysis, DNA; Soybeans / parasitology; Species Specificity; Tylenchoidea / metabolism
TL;DR: The results indicate that hallmark gene expression patterns and metabolism features are not shared in the developmentally arrested life stages of C. elegans and H. glycines, suggesting that developmental arrest in these two nematode species has undergone more divergent evolution than previously thought and pointing to the need for detailed genomic analyses of individual parasite species. (via Semantic Scholar)
UN Sustainable Development Goals Color Wheel
UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018

2006 journal article

A method for generating Meloidogyne incognita males

Journal of Nematology, 38(2), 192–194. http://www.scopus.com/inward/record.url?eid=2-s2.0-33750134280&partnerID=MN8TOARS

By: D. Snyder, C. Opperman & D. Bird

Contributors: D. Snyder, C. Opperman & D. Bird

www.scopus.com
Sources: NC State University Libraries, ORCID
Added: August 6, 2018

2006 journal article

A method for isolation of Pasteuria penetrans endospores for bioassay and genomic studies

Journal of Nematology, 38(1), 165–167. http://www.scopus.com/inward/record.url?eid=2-s2.0-34248330929&partnerID=MN8TOARS

By: J. Waterman, D. Bird & C. Opperman

Contributors: J. Waterman, D. Bird & C. Opperman

www.scopus.com
Sources: NC State University Libraries, ORCID
Added: August 6, 2018

2006 journal article

A white paper on nematode comparative genomics

Journal of Nematology, 37(4), 408–416.

By: D. Bird , M. Blaxter, J. McCarter, M. Mitreva, P. Sternberg & W. Thomas

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

2006 journal article

Detection of putative secreted proteins in the plant-parasitic nematode Heterodera schachtii

Parasitology Research, 98(5), 414–424.

By: B. Vanholme *, M. Mitreva *, W. Van Criekinge *, M. Logghe*, D. Bird n , J. McCarter *, G. Gheysen *

Contributors: B. Vanholme *, M. Mitreva *, W. Van Criekinge *, M. Logghe*, D. Bird n , J. McCarter *, G. Gheysen *

MeSH headings : Animals; Computational Biology / methods; Contig Mapping; DNA, Helminth / chemistry; DNA, Helminth / genetics; Expressed Sequence Tags; Gene Library; Glycoside Hydrolases / chemistry; Glycoside Hydrolases / genetics; Helminth Proteins / genetics; Plants / parasitology; Protein Sorting Signals / genetics; Protein Structure, Tertiary / genetics; Tylenchoidea / genetics
TL;DR: The in silico approach described here is an effective way to identify putative secreted proteins and prioritize candidates for further studies and provides the first report of an arabinogalactan endo-1,4-β-galactosidase enzyme in animals. (via Semantic Scholar)
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UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
Source: ORCID
Added: January 30, 2020

2006 journal article

Nematode gene sequences: Update for December 2005

Journal of Nematology, 37(4), 417–421.

By: J. McCarter, D. Bird  & M. Mitreva

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

2005 journal article

A white paper on nematode comparative genomics

Journal of Nematology, 37(4), 408–416. http://www.scopus.com/inward/record.url?eid=2-s2.0-33744994353&partnerID=MN8TOARS

By: D. Bird, M. Blaxter, J. McCarter, M. Mitreva, P. Sternberg & W. Thomas

Contributors: D. Bird, M. Blaxter, J. McCarter, M. Mitreva, P. Sternberg & W. Thomas

www.scopus.com
Source: ORCID
Added: January 30, 2020

2005 review

Comparative genomics of nematodes

[Review of ]. TRENDS IN GENETICS, 21(10), 573–581.

By: M. Mitreva *, M. Blaxter *, D. Bird n  & J. McCarter *

Contributors: M. Mitreva *, M. Blaxter *, D. Bird n  & J. McCarter *

MeSH headings : Animals; Chromosome Aberrations; Databases, Genetic; Evolution, Molecular; Gene Transfer, Horizontal / genetics; Genetic Variation; Genome / genetics; Genomics / methods; Genomics / trends; Nematoda / genetics; Phylogeny; Species Specificity
TL;DR: Analysis of draft nematode genome sequences have revealed multiple unexpected results, which will underpin both molecular understanding of these most abundant metazoan organisms and aid in the examination of the dynamics of genome evolution in animals. (via Semantic Scholar)
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UN Sustainable Development Goal Categories
Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018

2005 journal article

Model systems in agriculture: Lessons from worms

Annals of Applied Biology, 146(2), 147–154.

By: D. Bird n 

Contributors: D. Bird n 

TL;DR: Genomic tools are expanding the utility of organisms originally developed as models for biomedical research as a means to address complex agricultural problems, and agricultural pests are serving as models to help unravel questions of basic biology. (via Semantic Scholar)
UN Sustainable Development Goals Color Wheel
UN Sustainable Development Goal Categories
2. Zero Hunger (OpenAlex)
Sources: NC State University Libraries, ORCID
Added: August 6, 2018

2005 journal article

Nematode gene sequences: Update for December 2005

Journal of Nematology, 37(4), 417–421. http://www.scopus.com/inward/record.url?eid=2-s2.0-33744980477&partnerID=MN8TOARS

By: J. McCarter, D. Bird & M. Mitreva

Contributors: J. McCarter, D. Bird & M. Mitreva

www.scopus.com
Source: ORCID
Added: January 30, 2020

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)
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UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018

2005 journal article

Resolving tylenchid evolutionary relationships through multiple gene analysis derived from EST data

MOLECULAR PHYLOGENETICS AND EVOLUTION, 36(3), 536–545.

By: E. Scholl n & D. Bird n 

Contributors: E. Scholl n & D. Bird n 

author keywords: Bayesian; Caenorhabditis elegans; COG; cyst nematode; orthologues; root-knot nematode
MeSH headings : Animals; Evolution, Molecular; Expressed Sequence Tags; Phylogeny; Selection, Genetic; Tylenchida / genetics
TL;DR: This EST-based multi-gene analysis is a first step towards accomplishing genome-wide coverage for tylenchid evolutionary analyses and reveals significant differences in selective pressure for some genes under some hypotheses, though all but one gene are exclusively under purifying selection. (via Semantic Scholar)
UN Sustainable Development Goals Color Wheel
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, ORCID, NC State University Libraries
Added: August 6, 2018

2005 journal article

Root-knot nematodes and bacterial Nod factors elicit common signal transduction events in Lotus japonicus

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 102(8), 3147–3152.

By: R. Weerasinghe n, D. Bird n  & N. Allen n

Contributors: R. Weerasinghe n, D. Bird  n & N. Allen n

author keywords: cytoskeleton; NemF; rhizobia; actin; microtubule
MeSH headings : Animals; Cytoskeleton / physiology; Lipopolysaccharides / pharmacology; Lotus / physiology; Signal Transduction / physiology; Symbiosis; Tylenchoidea / physiology
TL;DR: It is proposed that plant-parasitic root-knot nematodes have adapted at least part of the symbiont-response pathway to enhance their parasitic ability. (via Semantic Scholar)
UN Sustainable Development Goals Color Wheel
UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
15. Life on Land (OpenAlex)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018

2004 journal article

A survey of SL1-spliced transcipts from the root-lesion nematode Pratylenchus penetrans

MOLECULAR GENETICS AND GENOMICS, 272(2), 138–148.

By: M. Mitreva *, A. Elling *, M. Dante*, A. Kloek*, A. Kalyanaraman*, S. Aluru *, S. Clifton*, D. Bird n , T. Baum *, J. McCarter *

Contributors: M. Mitreva *, A. Elling *, M. Dante*, A. Kloek*, A. Kalyanaraman*, S. Aluru *, S. Clifton*, D. Bird  n, T. Baum *, J. McCarter *

author keywords: Pratylenchus; expressed sequence tags (ESTs); comparative genomics; gene expression; parasite
MeSH headings : Animals; Caenorhabditis elegans / genetics; DNA, Helminth / genetics; Expressed Sequence Tags; Gene Library; Gene Transfer, Horizontal; Genes, Helminth; Multigene Family; Phenotype; Plant Diseases / parasitology; Plants / parasitology; Polymerase Chain Reaction; RNA Interference; RNA, Helminth / genetics; RNA, Spliced Leader / genetics; Species Specificity; Tylenchoidea / genetics; Tylenchoidea / growth & development; Tylenchoidea / pathogenicity
TL;DR: The generation and analysis of 1928 expressed sequence tags (ESTs) of a splice-leader 1 (SL1) library from mixed life stages of the root-lesion nematode Pratylenchus penetrans are described. (via Semantic Scholar)
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UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018

2004 journal article

Cytokinins play opposite roles in lateral root formation, and nematode and Rhizobial symbioses

PLANT JOURNAL, 38(2), 203–214.

By: D. Lohar n, J. Schaff n, J. Laskey*, J. Kieber *, K. Bilyeu * & D. Bird n 

Contributors: D. Lohar n, J. Schaff n, J. Laskey*, J. Kieber *, K. Bilyeu * & D. Bird  n

author keywords: cytokinins; lateral root; symbiosis; cytokinin oxidase; ARR; Lotus japonicus
MeSH headings : Animals; Arabidopsis / genetics; Base Sequence; Cytokinins / physiology; DNA, Plant / genetics; Gene Expression Regulation, Developmental; Gene Expression Regulation, Plant; Genes, Plant; Genes, Reporter; Glucuronidase / genetics; Lotus / genetics; Lotus / growth & development; Lotus / microbiology; Lotus / parasitology; Oxidoreductases / genetics; Plant Diseases / genetics; Plant Diseases / parasitology; Plant Roots / growth & development; Plants, Genetically Modified; Promoter Regions, Genetic; Rhizobium / physiology; Symbiosis / physiology; Tylenchoidea / pathogenicity; Tylenchoidea / physiology; Zea mays / genetics
TL;DR: A dynamic role for cytokinin in lateral root development is suggested, as seen in curled/deformed root hairs, and also in nodule primordia in response to Rhizobial inoculation. (via Semantic Scholar)
UN Sustainable Development Goals Color Wheel
UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
15. Life on Land (OpenAlex)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018

2004 journal article

High society (of nematologists)

Genome Biology, 5(11).

By: D. Bird  n

Contributors: D. Bird  n

MeSH headings : Animals; Bacteria / metabolism; Caenorhabditis / genetics; Caenorhabditis / metabolism; Caenorhabditis / microbiology; Caenorhabditis elegans / genetics; Caenorhabditis elegans / metabolism; Caenorhabditis elegans / microbiology; Chorismate Mutase / genetics; Cytoskeleton / chemistry; Evolution, Molecular; Helminth Proteins / metabolism; Microscopy, Confocal / methods; Nematoda / genetics; Nematoda / metabolism; Nematoda / microbiology; Phylogeny; Plant Cells; Plants / chemistry; Plants / metabolism; Plants / parasitology; United States
TL;DR: A report on the 43rd annual meeting of the Society of Nematologists (SON), Estes Park, USA, 7-11 August 2004. (via Semantic Scholar)
Source: ORCID
Added: January 30, 2020

2004 review

Signaling between nematodes and plants

[Review of ]. CURRENT OPINION IN PLANT BIOLOGY, 7(4), 372–376.

By: D. Bird n 

Contributors: D. Bird  n

MeSH headings : Animals; Gene Expression Regulation, Plant; Host-Parasite Interactions; Nematoda / genetics; Nematoda / metabolism; Nematoda / pathogenicity; Plant Roots / metabolism; Plant Roots / parasitology; Plants / metabolism; Plants / parasitology; Signal Transduction
TL;DR: After hatching in the soil, root-knot nematodes must locate and penetrate a root, migrate into the vascular cylinder, and establish a permanent feeding site, Presumably, these events are accompanied by extensive signaling between the nematode parasite and the host. (via Semantic Scholar)
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UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018

2003 journal article

Analysis and functional classification of transcripts from the nematode Meloidogyne incognita.

Genome Biology, 4(4), R26–1. http://www.scopus.com/inward/record.url?eid=2-s2.0-9444261296&partnerID=MN8TOARS

By: J. McCarter, M. Mitreva, J. Martin, M. Dante, T. Wylie, U. Rao, D. Pape, Y. Bowers ...

Contributors: J. McCarter, M. Mitreva, J. Martin, M. Dante, T. Wylie, U. Rao, D. Pape, Y. Bowers ...

www.scopus.com
Sources: NC State University Libraries, ORCID
Added: August 6, 2018

2003 review

Are roots special? Nematodes have their say

[Review of ]. PHYSIOLOGICAL AND MOLECULAR PLANT PATHOLOGY, 62(2), 115–123.

By: D. Bird n  & I. Kaloshian *

Contributors: D. Bird  n & I. Kaloshian *

author keywords: Caenorhabditis elegans; genomics; horizontal-gene transfer; Macrosiphum euphorbiae; Meloidogyne spp; rhizobia
TL;DR: Based on recent molecular evidence, several scenarios involving phytohormones in the induction of giant cells by root-knot nematodes are presented and parallels with aphid-plant interactions are emphasized. (via Semantic Scholar)
UN Sustainable Development Goals Color Wheel
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, ORCID, NC State University Libraries
Added: August 6, 2018

2003 journal article

Horizontally transferred genes in plant-parasitic nematodes: a high-throughput genomic approach.

Genome Biology, 4(6), R39–1. http://www.scopus.com/inward/record.url?eid=2-s2.0-0038576862&partnerID=MN8TOARS

By: E. Scholl, J. Thorne, J. McCarter & D. Bird 

Contributors: E. Scholl, J. Thorne, J. McCarter & D. Bird 

www.scopus.com
Sources: NC State University Libraries, ORCID
Added: August 6, 2018

2003 review

Interactions between bacteria and plant-parasitic nematodes: now and then

[Review of ]. INTERNATIONAL JOURNAL FOR PARASITOLOGY, 33(11), 1269–1276.

By: D. Bird n , C. Opperman n & K. Davies *

Contributors: D. Bird  n, C. Opperman n & K. Davies *

author keywords: horizontal gene transfer; Meloidogyne; Pasteuria penetrans; rhizobia; root-knot nematode; synteny
MeSH headings : Animals; Bacillus / genetics; Bacillus / physiology; Gene Transfer, Horizontal; Genes, Bacterial; Genes, Helminth; Life Cycle Stages; Plants / parasitology; Rhizobiaceae / genetics; Rhizobiaceae / physiology; Synteny; Tylenchoidea / genetics; Tylenchoidea / parasitology; Tylenchoidea / physiology
TL;DR: It is proposed that the origin of parasitism in Meloidogyne may have been facilitated by acquisition of genetic material from soil bacteria through horizontal transfer, and that such events represented key steps in speciation of plant-parasitic nematodes. (via Semantic Scholar)
UN Sustainable Development Goals Color Wheel
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, ORCID, NC State University Libraries
Added: August 6, 2018

2003 journal article

Lotus japonicus: A new model to study root-parasitic nematodes

PLANT AND CELL PHYSIOLOGY, 44(11), 1176–1184.

By: D. Lohar n & D. Bird n 

Contributors: D. Lohar n & D. Bird  n

author keywords: CLAVATA1-like receptor kinase; har1; Heterodera glycines; hypersensitive response; Lotus japonicus; Meloidogyne spp.
MeSH headings : Animals; Lotus / parasitology; Models, Biological; Nematoda / physiology; Plant Roots / parasitology
TL;DR: Lotus japonicus is a powerful model legume for studying compatible and incompatible plant-nematode interactions, and is developed as such a model by establishing conditions for efficient parasitism by root-knot nematode of the widely used Lotus "Gifu" ecotype. (via Semantic Scholar)
UN Sustainable Development Goals Color Wheel
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, ORCID, NC State University Libraries
Added: August 6, 2018

2003 journal article

Molecular signals and receptors: Controlling rhizosphere interactions between plants and other organisms

ECOLOGY, 84(4), 858–868.

By: A. Hirsch *, W. Bauer *, D. Bird n , J. Cullimore *, B. Tyler & J. Yoder *

Contributors: A. Hirsch *, W. Bauer *, D. Bird n , J. Cullimore *, B. Tyler & J. Yoder *

author keywords: parasitism; pathogenesis; predation; quorum sensing; receptors; rhizosphere interactions; signals; symbiosis
TL;DR: A new age of experimental field ecology may soon burst forth in rhizosphere studies by identifying the signals, receptors, and the critical control points, to better understand the organismal dynamics in this key belowground ecosystem. (via Semantic Scholar)
UN Sustainable Development Goals Color Wheel
UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
15. Life on Land (OpenAlex)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018

2003 journal article

Nematode gene sequences: Update for December 2003

Journal of Nematology, 35(4), 465–469. http://www.scopus.com/inward/record.url?eid=2-s2.0-1842510703&partnerID=MN8TOARS

By: J. McCarter, M. Mitreva, S. Clifton, D. Bird & R. Waterston

Contributors: J. McCarter, M. Mitreva, S. Clifton, D. Bird & R. Waterston

www.scopus.com
Sources: NC State University Libraries, ORCID
Added: August 6, 2018

2002 journal article

Nematode gene sequences, update for June 2002

Journal of Nematology, 34(2), 71–74. http://www.scopus.com/inward/record.url?eid=2-s2.0-0036618995&partnerID=MN8TOARS

By: J. McCarter, S. Clifton, D. Bird & R. Waterston

Contributors: J. McCarter, S. Clifton, D. Bird & R. Waterston

www.scopus.com
Sources: NC State University Libraries, ORCID
Added: August 6, 2018

2002 journal article

Recovery and sequence validation of the histological signal following in situ RT-PCR localization of plant gene transcripts

PLANT MOLECULAR BIOLOGY REPORTER, 20(4), 391–397.

By: H. Koltai* & D. Bird n 

Contributors: H. Koltai* & D. Bird n 

author keywords: functional genomics; in situ RT-PCR; Medicago truncatula; nodule; signal specificity; transcription
TL;DR: The ability to experimentally establish the specificity of an in situ signal after the fact enhances the high-throughput capability of the in-well RT-PCR method and further increases the utility of this technique as a powerful tool for functional genomics studies. (via Semantic Scholar)
UN Sustainable Development Goals Color Wheel
UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018

2001 journal article

Cytochrome c is not essential for viability of the fungus Aspergillus nidulans

Molecular Genetics and Genomics, 266(1), 48–55.

By: R. Bradshaw *, D. Bird* , S. Brown *, R. Gardiner* & P. Hirst*

Contributors: R. Bradshaw *, D. Bird* , S. Brown *, R. Gardiner* & P. Hirst*

author keywords: cytochrome c; Aspergillus; gene replacement; alternative respiration
MeSH headings : Aspergillus nidulans / enzymology; Aspergillus nidulans / genetics; Aspergillus nidulans / growth & development; Aspergillus nidulans / metabolism; Cytochrome c Group / metabolism; Diploidy; Ethanol / metabolism; Fermentation; Genes, Fungal; Mutation; Oxygen / metabolism; Spores, Fungal
TL;DR: This is the first report of a filamentous fungus that remains viable after complete elimination of a functional cytochrome c gene, and it is proposed that the mutants are viable due to their ability to ferment and to use alternative respiratory pathways. (via Semantic Scholar)
Source: ORCID
Added: January 30, 2020

2001 journal article

Overlapping plant signal transduction pathways induced by a parasitic nematode and a rhizobial endosymbiont

MOLECULAR PLANT-MICROBE INTERACTIONS, 14(10), 1168–1177.

By: H. Koltai n, M. Dhandaydham, C. Opperman*, J. Thomas* & D. Bird n 

Contributors: H. Koltai n, M. Dhandaydham, C. Opperman*, J. Thomas* & D. Bird n 

author keywords: cytokinin; Meloidogyne incognita; Nod factor; PHANTASTICA; polar auxin flow; rough sheath2
MeSH headings : Amino Acid Sequence; Animals; Cell Cycle Proteins / genetics; Cell Cycle Proteins / physiology; Cell Size; DNA-Binding Proteins / genetics; DNA-Binding Proteins / physiology; Gene Expression Regulation, Plant; Growth Substances / genetics; Growth Substances / physiology; Homeodomain Proteins / genetics; Homeodomain Proteins / physiology; Host-Parasite Interactions; Humans; Medicago / genetics; Medicago / microbiology; Medicago / parasitology; Mitosis; Molecular Sequence Data; Nematoda / genetics; Nematoda / physiology; Nuclear Proteins / genetics; Nuclear Proteins / physiology; Plant Diseases / microbiology; Plant Diseases / parasitology; Plant Proteins / genetics; Plant Proteins / physiology; Plant Roots / genetics; Plant Roots / microbiology; Plant Roots / parasitology; Proto-Oncogene Proteins c-myb; Sequence Homology, Amino Acid; Signal Transduction / physiology; Sinorhizobium meliloti / genetics; Sinorhizobium meliloti / physiology; Symbiosis
TL;DR: Common elements of host responses to mutualistic and parasitic plant endosymbionts are revealed and imply that overlapping regulatory pathways lead to giant cells and nodules. (via Semantic Scholar)
UN Sustainable Development Goals Color Wheel
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, ORCID, NC State University Libraries
Added: August 6, 2018

2000 journal article

Alan Francis Bird: 1928-99

Journal of Nematology, 32(1), 1–3.

By: D. Bird 

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

2000 journal article

Epistatic repression of PHANTASTICA and class 1 KNOTTED genes is uncoupled in tomato

PLANT JOURNAL, 22(5), 455–459.

By: H. Koltai  n & D. Bird n 

Contributors: H. Koltai  n & D. Bird n 

MeSH headings : Base Sequence; DNA Primers; DNA-Binding Proteins / genetics; Epistasis, Genetic; Homeodomain Proteins / genetics; Solanum lycopersicum / genetics; Molecular Sequence Data; Plant Proteins / genetics; Proto-Oncogene Proteins c-myb
TL;DR: The results imply that the expression of Le-phan is insufficient for the repression of Tkn2 in tomato and suggest an expanded role for either gene in the establishment of cell identity in plant development. (via Semantic Scholar)
UN Sustainable Development Goals Color Wheel
UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018

2000 journal article

High throughput cellular localization of specific plant mRNAs by liquid-phase in situ reverse transcription-polymerase chain reaction of tissue sections

PLANT PHYSIOLOGY, 123(4), 1203–1212.

By: H. Koltai n & D. Bird n 

Contributors: H. Koltai n & D. McKenzie Bird

MeSH headings : Arabidopsis / anatomy & histology; Arabidopsis / genetics; Gene Expression Profiling / methods; Genes, Plant; Solanum lycopersicum / anatomy & histology; Solanum lycopersicum / genetics; Microscopy, Interference; RNA, Messenger / analysis; Reverse Transcriptase Polymerase Chain Reaction / methods
TL;DR: A polymerase chain reaction-based method to detect mRNA species in situ in which essentially all of the steps are carried out in liquid phase in a 96-well microtiter tray and only the final signal detection is performed on a microscope slide, which may become a powerful tool for functional genomics studies. (via Semantic Scholar)
UN Sustainable Development Goals Color Wheel
UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
10. Reduced Inequalities (OpenAlex)
13. Climate Action (Web of Science)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018

2000 journal article

Nematode gene sequences, December 2000 update

Journal of Nematology, 32(4), 331–333. http://www.scopus.com/inward/record.url?eid=2-s2.0-0034353966&partnerID=MN8TOARS

By: J. McCarter, D. Bird, S. Clifton & R. Waterston

Contributors: J. McCarter, D. Bird, S. Clifton & R. Waterston

www.scopus.com
Sources: NC State University Libraries, ORCID
Added: August 6, 2018

2000 journal article

Plant parasitic nematodes: Habitats, hormones, and horizontally-acquired genes

Journal of Plant Growth Regulation, 19(2), 183–194. http://www.scopus.com/inward/record.url?eid=2-s2.0-0033758702&partnerID=MN8TOARS

By: D. Bird  & H. Koltai

Contributors: D. Bird  & H. Koltai

www.scopus.com
Sources: NC State University Libraries, ORCID
Added: August 6, 2018

2000 journal article

Rapid gene discovery in plant parasitic nematodes via Expressed Sequence Tags

NEMATOLOGY, 2(7), 719–731.

By: J. McCarter, P. Abad*, J. Jones * & D. Bird n 

Contributors: J. McCarter, P. Abad*, J. Jones * & D. Bird n 

author keywords: Caenorhabditis elegans; clustering; EST; Globodera; Meloidogyne; NemaGene
TL;DR: The process used to create sequences called expressed sequence tags or ESTs, which are single-sequence reads from randomly-selected cDNA clones, are reviewed and the strengths and weaknesses of ESTs as research tools are outlined. (via Semantic Scholar)
UN Sustainable Development Goals Color Wheel
UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018

1999 review

The Caenorhabditis elegans genome: A guide in the post genomics age

[Review of ]. ANNUAL REVIEW OF PHYTOPATHOLOGY, 37(1999), 247–265.

By: D. Bird n , C. Opperman n, S. Jones * & D. Baillie*

Contributors: D. Bird  n, C. Opperman n, S. Jones * & D. Baillie*

author keywords: genetics; Heterodera glycines; host resistance; nematode; parasites
TL;DR: The completion of the entire genome sequence of the free-living nematode, Caenorhabditis elegans is a tremendous milestone in modern biology and genetic and genomic approaches to the study of parasitic nematodes now have a clearly marked path to follow. (via Semantic Scholar)
UN Sustainable Development Goals Color Wheel
UN Sustainable Development Goal Categories
Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018

1998 journal article

Caenorhabditis elegans: A genetic guide to parasitic nematode biology

Journal of Nematology, 30(3), 299–308. http://www.scopus.com/inward/record.url?eid=2-s2.0-0032357095&partnerID=MN8TOARS

By: D. Bird & C. Opperman

Contributors: D. Bird & C. Opperman

www.scopus.com
Sources: NC State University Libraries, ORCID
Added: August 6, 2018

1998 review

The soybean cyst nematode, Heterodera glycines: a genetic model system for the study of plant-parasitic nematodes

[Review of ]. CURRENT OPINION IN PLANT BIOLOGY, 1(4), 342–346.

By: C. Opperman n & D. Bird n 

Contributors: C. Opperman n & D. Bird n 

MeSH headings : Animals; Models, Biological; Nematoda / genetics; Nematoda / physiology; Physical Chromosome Mapping; Soybeans / genetics; Soybeans / parasitology
TL;DR: Integration of classic and reverse genetics and genomic approaches for the parasite, with host genetics and genomics will expand the knowledge of nematode parasitism. (via Semantic Scholar)
UN Sustainable Development Goals Color Wheel
UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018

1997 journal article

Gene targeting is locus dependent in the filamentous fungus Aspergillus nidulans

Molecular and General Genetics, 255(2), 219–225.

By: D. Bird*  & R. Bradshaw *

Contributors: D. Bird*  & R. Bradshaw *

author keywords: Aspergillus nidulans; gene targeting nitrate reductase; acetamidase
MeSH headings : Amidohydrolases / genetics; Aspergillus nidulans / genetics; Aspergillus nidulans / growth & development; DNA / chemistry; DNA / genetics; DNA Damage; Nitrate Reductase; Nitrate Reductases / genetics; Plasmids / chemistry; Plasmids / genetics; Temperature; Transcription, Genetic; Transformation, Genetic
TL;DR: The most dramatic effect was the difference between targeting efficiency at different genetic loci, with targeting of niaD being at least five fold more efficient than amdS under all conditions tested. (via Semantic Scholar)
Source: ORCID
Added: January 30, 2020

1997 journal article

Promoter structure of the RNA polymerase II large subunit gene in caenorhabditis elegans and C. Briggsae

Journal of Nematology, 29(2), 144–152. http://www.scopus.com/inward/record.url?eid=2-s2.0-0030786968&partnerID=MN8TOARS

By: D. Bird , I. Kaloshian & S. Molinari

Contributors: D. Bird , I. Kaloshian & S. Molinari

www.scopus.com
Sources: NC State University Libraries, ORCID
Added: August 6, 2018

1996 article

Manipulation of host gene expression by root-knot nematodes

Bird, D. M. (1996, December). JOURNAL OF PARASITOLOGY, Vol. 82, pp. 881–888.

By: D. Bird n 

Contributors: D. Bird  n

TL;DR: Based on analysis of approximately 220 giant cell expressed genes, key elements of giant cell function and regulation have been identified; examples are discussed in the context of giants cell biology and ontogeny. (via Semantic Scholar)
UN Sustainable Development Goals Color Wheel
UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018

1994 journal article

A comprehensive subtractive cDNA cloning approach to identify nematode-induced transcripts in tomato

Phytopathology, 84(3), 299–303.

By: M. Wilson, D. Bird  & E. Knaap

Contributors: M. Wilson, D. Bird  & E. Knaap

TL;DR: Using a cDNA cloning technique that incorporated polymerase chain reaction amplification of cDNA and subtraction in a single-strand phage-mid vector, a library of transcripts exhibiting up regulation in tomato cells infected with the parasitic nematode Meloidogyne incognita was constructed. (via Semantic Scholar)
Source: ORCID
Added: January 30, 2020

1994 journal article

A genetic nomenclature for parasitic nematodes

Journal of Nematology, 26(2), 138–143. http://www.scopus.com/inward/record.url?eid=2-s2.0-0028054366&partnerID=MN8TOARS

By: D. Bird  & D. Riddle

Contributors: D. Bird  & D. Riddle

www.scopus.com
Source: ORCID
Added: January 30, 2020

1994 journal article

DNA sequence and expression analysis of root-knot nematode-elicited giant cell transcripts

Molecular Plant-Microbe Interactions, 7(3), 419–424.

By: D. Bird*  & M. Wilson

Contributors: D. Bird*  & M. Wilson

TL;DR: The identities of approximately 20% of the giant cell transcripts were inferred from DNA sequence data; they include sequences encoding a plasmalemma proton ATPase, a putative Myb-type transcription factor, and the largest subunit of RNA polymerase II. (via Semantic Scholar)
UN Sustainable Development Goals Color Wheel
UN Sustainable Development Goal Categories
15. Life on Land (OpenAlex)
Source: ORCID
Added: January 30, 2020

1993 journal article

Rapid miniprep isolation of mitochondrial DNA from metacestodes, and free- living and parasitic nematodes

Journal of Parasitology, 79(6), 964–967.

By: J. Peloquin*, D. Bird*  & E. Platzer

Contributors: J. Peloquin*, D. Bird*  & E. Platzer

TL;DR: A method, based on one to isolate supercoiled plasmid DNA from bacterial cells, has been developed to purify mitochondrial DNA from cestode and nematode tissue easily and efficiently. (via Semantic Scholar)
Source: ORCID
Added: January 30, 2020

1992 journal article

Efficient removal of hybridization signal from Southern blots probed with radiolabeled oligonucleotides

BioTechniques, 13(1), 34–36. http://www.scopus.com/inward/record.url?eid=2-s2.0-0026653183&partnerID=MN8TOARS

By: I. Kaloshian & D. Bird 

Contributors: I. Kaloshian & D. Bird 

www.scopus.com
Source: ORCID
Added: January 30, 2020

1992 journal article

Sequence comparison of the Caenorhabditis elegans dpy-13 and col-34 genes, and their deduced collagen products

Gene, 120(2), 261–266.

By: D. Bird *

Contributors: D. Bird *

author keywords: RECOMBINANT DNA; NEMATODES; MORPHOGENESIS; PROTEINS; SECONDARY STRUCTURE; GENETIC MAP; MUTANT
MeSH headings : Amino Acid Sequence; Animals; Caenorhabditis elegans / genetics; Cloning, Molecular; Collagen / genetics; Genes; Introns; Molecular Sequence Data; Restriction Mapping; Sequence Homology, Amino Acid; Sequence Homology, Nucleic Acid; TATA Box
TL;DR: The deduced amino acid sequence of Col-34 has a high degree of homology with the Dpy-13 collagen, although there are significant differences. (via Semantic Scholar)
Source: ORCID
Added: January 30, 2020

1989 journal article

Molecular cloning and sequencing of ama-1, the gene encoding the largest subunit of Caenorhabditis elegans RNA polymerase II

Molecular and Cellular Biology, 9(10), 4119–4130.

By: D. Bird*  & D. Riddle*

Contributors: D. Bird*  & D. Riddle*

Source: ORCID
Added: January 30, 2020

1988 journal article

dpy-13: A nematode collagen gene that affects body shape

Cell, 55(4), 567–576.

By: N. Mende*, D. Bird *, P. Albert* & D. Riddle*

Contributors: N. Mende*, D. Bird *, P. Albert* & D. Riddle*

MeSH headings : Alleles; Animals; Base Sequence; Caenorhabditis / genetics; Caenorhabditis / growth & development; Chromosome Deletion; Collagen / genetics; DNA / analysis; DNA Transposable Elements; Molecular Sequence Data; Mutation; RNA Polymerase II / genetics
TL;DR: The DNA sequence reveals that dpy-13 is a member of the collagen multi-gene family, and it could encode a polypeptide of 302 amino acids, which is unique in the C. elegans genome. (via Semantic Scholar)
Source: ORCID
Added: January 30, 2020

Employment

Updated: January 28th, 2020 12:18

1995 - present

North Carolina State University Raleigh, NC, US
Named Professor Entomology and Plant Pathology

Education

Updated: January 30th, 2020 13:08

1980 - 1984

University of Adelaide Adelaide, SA, AU
PhD Biochemistry

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