1. A Massive Expansion of Effector Genes Underlies Gall-Formation in the Wheat Pest Mayetiola destructor

    Current Biology 25(5):613 (2015) PMID 25660540

    Gall-forming arthropods are highly specialized herbivores that, in combination with their hosts, produce extended phenotypes with unique morphologies [1]. Many are economically important, and others have improved our understanding of ecology and adaptive radiation [2]. However, the mec...
  2. A Massive Expansion of Effector Genes Underlies Gall-Formation in the Wheat Pest Mayetiola destructor.

    Current Biology 25(5):613 (2015) PMID 25660540

    Gall-forming arthropods are highly specialized herbivores that, in combination with their hosts, produce extended phenotypes with unique morphologies [1]. Many are economically important, and others have improved our understanding of ecology and adaptive radiation [2]. However, the mechanisms th...
  3. A Massive Expansion of Effector Genes Underlies Gall-Formation in the Wheat Pest Mayetiola destructor

    Current Biology (2014)

    • The plant galling Mayetiola destructor genome is replete with effector genes • The SSGP-71 effector gene family is the largest known arthropod gene family. ...
  4. Predicted effector molecules in the salivary secretome of the pea aphid (Acyrthosiphon pisum): a dual transcriptomic/proteomic approach.

    Journal of Proteome Research 10(4):1505 (2011) PMID 21226539

    The relationship between aphids and their host plants is thought to be functionally analogous to plant-pathogen interactions. Although virulence effector proteins that mediate plant defenses are well-characterized for pathogens such as bacteria, oomycetes, and nematodes, equivalent molecules in ...
  5. Predicted effector molecules in the salivary secretome of the pea aphid (Acyrthosiphon pisum): a dual transcriptomic/proteomic approach.

    Journal of Proteome Research 10(4):1505 (2011) PMID 21226539

    The relationship between aphids and their host plants is thought to be functionally analogous to plant-pathogen interactions. Although virulence effector proteins that mediate plant defenses are well-characterized for pathogens such as bacteria, oomycetes, and nematodes, equivalent molecules in ...
  6. BeetleBase in 2010: revisions to provide comprehensive genomic information for Tribolium castaneum.

    Nucleic Acids Research 38(Database issue):D437 (2010) PMID 19820115 PMCID PMC2808946

    BeetleBase (http://www.beetlebase.org) has been updated to provide more comprehensive genomic information for the red flour beetle Tribolium castaneum. The database contains genomic sequence scaffolds mapped to 10 linkage groups (genome assembly release Tcas_3.0), genetic linkage maps, the offic...
  7. Semi-supervised prediction of protein subcellular localization using abstraction augmented Markov models.

    BMC Bioinformatics 11 Suppl 8:S6 (2010) PMID 21034431 PMCID PMC2966293

    Determination of protein subcellular localization plays an important role in understanding protein function. Knowledge of the subcellular localization is also essential for genome annotation and drug discovery. Supervised machine learning methods for predicting the localization of a protein in a...
  8. Comparative analysis of expressed sequence tags from three castes and two life stages of the termite Reticulitermes flavipes.

    BMC Genomics 11:463 (2010) PMID 20691076 PMCID PMC3091659

    Termites (Isoptera) are eusocial insects whose colonies consist of morphologically and behaviorally specialized castes of sterile workers and soldiers, and reproductive alates. Previous studies on eusocial insects have indicated that caste differentiation and behavior are underlain by differenti...
  9. BeetleBase in 2010: revisions to provide comprehensive genomic information for Tribolium castaneum.

    Nucleic Acids Research 38(Database issue):D437 (2010) PMID 19820115 PMCID PMC2808946

    BeetleBase (http://www.beetlebase.org) has been updated to provide more comprehensive genomic information for the red flour beetle Tribolium castaneum. The database contains genomic sequence scaffolds mapped to 10 linkage groups (genome assembly release Tcas_3.0), genetic linkage maps, the offic...
  10. Prediction of alternatively spliced exons using support vector machines.

    International Journal of Data Mining and Bioinf... 4(4):411 (2010) PMID 20815140

    Alternative splicing is a mechanism for generating different gene transcripts (called isoforms) from the same genomic sequence. In this paper, we explore the predictive power of a large set of diverse gene features that have been experimentally shown to have effect on alternative splicing. We us...
  11. Semi-supervised prediction of protein subcellular localization using abstraction augmented Markov models.

    BMC Bioinformatics 11 Suppl 8:S6 (2010) PMID 21034431 PMCID PMC2966293

    Determination of protein subcellular localization plays an important role in understanding protein function. Knowledge of the subcellular localization is also essential for genome annotation and drug discovery. Supervised machine learning methods for predicting the localization of a protein in a...
  12. Comparative analysis of expressed sequence tags from three castes and two life stages of the termite Reticulitermes flavipes.

    BMC Genomics 11:463 (2010) PMID 20691076 PMCID PMC3091659

    Termites (Isoptera) are eusocial insects whose colonies consist of morphologically and behaviorally specialized castes of sterile workers and soldiers, and reproductive alates. Previous studies on eusocial insects have indicated that caste differentiation and behavior are underlain by differenti...
  13. Prediction of alternatively spliced exons using support vector machines.

    International Journal of Data Mining and Bioinf... 4(4):411 (2010) PMID 20815140

    Alternative splicing is a mechanism for generating different gene transcripts (called isoforms) from the same genomic sequence. In this paper, we explore the predictive power of a large set of diverse gene features that have been experimentally shown to have effect on alternative splicing. We us...