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  1. Article

    Open Access

    A previously uncharacterized gene, PA2146, contributes to biofilm formation and drug tolerance across the ɣ-Proteobacteria

    Transcriptomic studies have revealed a large number of uncharacterized genes that are differentially expressed in biofilms, which may be important in regulating biofilm phenotypes such as resistance to antimic...

    Matthew F. Kaleta, Olga E. Petrova, Claudia Zampaloni in npj Biofilms and Microbiomes (2022)

  2. Article

    Open Access

    High-quality permanent draft genome sequence of the Mimosa asperata - nodulating Cupriavidus sp. strain AMP6

    Cupriavidus sp. strain AMP6 is an aerobic, motile, Gram-negative, non-spore-forming rod that was isolated from a root nodule of Mimosa asperata collected in Santa Ana National Wildlife Re...

    Sofie E. De Meyer, Matthew Parker, Peter Van Berkum in Standards in Genomic Sciences (2015)

  3. Article

    Open Access

    High-quality permanent draft genome sequence of Bradyrhizobium sp. Ai1a-2; a microsymbiont of Andira inermis discovered in Costa Rica

    Bradyrhizobium sp. Ai1a-2 is is an aerobic, motile, Gram-negative, non-spore-forming rod that was isolated from an effective nitrogen fixing root nodule of Andira inermis collected from Tres Pied...

    Rui Tian, Matthew Parker, Rekha Seshadri, TBK Reddy in Standards in Genomic Sciences (2015)

  4. No Access

    Article

    CONSERTING: integrating copy-number analysis with structural-variation detection

    CONSERTING detects somatic copy-number alterations from whole-genome sequence data with high accuracy and sensitivity and identifies breakpoints even in heterogeneous or impure tumors.

    **ang Chen, Pankaj Gupta, Jianmin Wang, Joy Nakitandwe, Kathryn Roberts in Nature Methods (2015)

  5. Article

    Open Access

    High-quality permanent draft genome sequence of Bradyrhizobium sp. Tv2a.2, a microsymbiont of Tachigali versicolor discovered in Barro Colorado Island of Panama

    Bradyrhizobiumsp. Tv2a.2 is an aerobic, motile, Gram-negative, non-spore-forming rod that was isolated from an effective nitrogen-fixing root nodule of Tachigali versicolor collected in Barro Col...

    Rui Tian, Matthew Parker, Rekha Seshadri, TBK Reddy in Standards in Genomic Sciences (2015)

  6. Article

    Open Access

    High-quality permanent draft genome sequence of Bradyrhizobium sp. Th.b2, a microsymbiont of Amphicarpaea bracteata collected in Johnson City, New York

    Bradyrhizobium sp. Th.b2 is an aerobic, motile, Gram-negative, non-spore-forming rod that was isolated from an effective nitrogen-fixing root nodule of Amphicarpaea bracteata collected in Johnson...

    Rui Tian, Matthew Parker, Rekha Seshadri, TBK Reddy in Standards in Genomic Sciences (2015)

  7. Article

    Open Access

    Genome sequence of Microvirga lupini strain LUT6T, a novel Lupinus alphaproteobacterial microsymbiont from Texas

    Microvirga lupini LUT6T is an aerobic, non-motile, Gram-negative, non-spore-forming rod that can exist as a soil saprophyte or as a legume microsymbiont of Lupinus texensis. LUT6T was isolated in 2006 from a nodu...

    Wayne Reeve, Matthew Parker, Rui Tian, Lynne Goodwin in Standards in Genomic Sciences (2014)

  8. Article

    Open Access

    Assessing telomeric DNA content in pediatric cancers using whole-genome sequencing data

    Telomeres are the protective arrays of tandem TTAGGG sequence and associated proteins at the termini of chromosomes. Telomeres shorten at each cell division due to the end-replication problem and are maintaine...

    Matthew Parker, **ang Chen, Armita Bahrami, James Dalton, Michael Rusch in Genome Biology (2012)

  9. No Access

    Article

    Engineering a thermoregulated intein-modified xylanase into maize for consolidated lignocellulosic biomass processing

    To facilitate the conversion of maize into biofuels, Shen et al. equip the plant with a thermoregulated intein-modified xylanase that does not compromise yield and allows cell-wall degradation at high temperature...

    Binzhang Shen, Xueguang Sun, **ao Zuo, Taran Shilling, James Apgar in Nature Biotechnology (2012)