Selected publications supported by sequence data generated and/or analysis performed by the GRC:

Y. Zhang, A. Brady, C. Jones et al., Compositional and Functional Differences in the Human Gut Microbiome Correlate with Clinical Outcome following Infection with Wild-Type Salmonella enterica Serovar Typhi. MBio 9,  doi:10.1128/mBio.00686-18 (2018).

D. Zella, S. Curreli, F. Benedetti et al., Mycoplasma promotes malignant transformation in vivo, and its DnaK, a bacterial chaperon protein, has broad oncogenic properties. Proceedings of the National Academy of Sciences of the United States of America,  doi:10.1073/pnas.1815660115 (2018).

K. E. Wickersham, T. K. Hodges, M. J. Edelman et al., Differential Gene Expression in Erlotinib-treated Fibroblasts. Nurs Res,  doi:10.1097/NNR.0000000000000330 (2018).

T. N. Watkins, H. Liu, M. Chung et al., Comparative transcriptomics of Aspergillus fumigatus strains upon exposure to human airway epithelial cells. Microb Genom,  doi:10.1099/mgen.0.000154 (2018).

J. Tam, T. Hamza, B. Ma et al., Host-targeted niclosamide inhibits C. difficile virulence and prevents disease in mice without disrupting the gut microbiota. Nat Commun 9, 5233 doi:10.1038/s41467-018-07705-w (2018).

Y. Song, B. Milon, S. Ott et al., A comparative analysis of library prep approaches for sequencing low input translatome samples. BMC genomics 19, 696 doi:10.1186/s12864-018-5066-2 (2018).

T. K. S. Richter, T. H. Hazen, D. Lam et al., Temporal Variability of Escherichia coli Diversity in the Gastrointestinal Tracts of Tanzanian Children with and without Exposure to Antibiotics. mSphere 3,  doi:10.1128/mSphere.00558-18 (2018).

K. P. Nickerson, S. Senger, Y. Zhang et al., Salmonella Typhi Colonization Provokes Extensive Transcriptional Changes Aimed at Evading Host Mucosal Immune Defense During Early Infection of Human Intestinal Tissue. EBioMedicine,  doi:10.1016/j.ebiom.2018.04.005 (2018).

T. F. Murphy, A. L. Brauer, M. M. Pettigrew, E. R. LaFontaine, H. Tettelin, Persistence of Moraxella catarrhalis in Chronic Obstructive Pulmonary Disease and Regulation of the Hag/MID Adhesin. J Infect Dis,  doi:10.1093/infdis/jiy680 (2018).

M. S. Matern, A. Beirl, Y. Ogawa et al., Transcriptomic Profiling of Zebrafish Hair Cells Using RiboTag. Front Cell Dev Biol 6, 47 doi:10.3389/fcell.2018.00047 (2018).

B. Ma, E. McComb, P. Gajer et al., Microbial Biomarkers of Intestinal Barrier Maturation in Preterm Infants. Frontiers in microbiology 9, 2755 doi:10.3389/fmicb.2018.02755 (2018).

I. Koutsourelakis, A. Halderman, S. Khalil et al., Temporal instability of the post-surgical maxillary sinus microbiota. BMC Infect Dis 18, 441 doi:10.1186/s12879-018-3272-9 (2018).

V. Joag, O. Obila, P. Gajer et al., Impact of Standard Bacterial Vaginosis Treatment on the Genital Microbiota, Immune Milieu, and Ex Vivo Human Immunodeficiency Virus Susceptibility. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America,  doi:10.1093/cid/ciy762 (2018).

E. E. Higginson, G. Ramachandran, T. H. Hazen et al., Improving Our Understanding of Salmonella enterica Serovar Paratyphi B through the Engineering and Testing of a Live Attenuated Vaccine Strain. mSphere 3,  doi:10.1128/mSphere.00474-18 (2018).

T. H. Hazen, R. T. Mettus, C. L. McElheny et al., Draft Genome Sequences of blaKPC-Containing Enterobacter aerogenes, Citrobacter freundii, and Citrobacter koseri Strains. Genome Announc 6,  doi:10.1128/genomeA.00035-18 (2018).

T. H. Hazen, R. Mettus, C. L. McElheny et al., Diversity among blaKPC-containing plasmids in Escherichia coli and other bacterial species isolated from the same patients. Sci Rep 8, 10291 doi:10.1038/s41598-018-28085-7 (2018).

D. R. Deutsch, B. Utter, K. J. Verratti et al., Extra-Chromosomal DNA Sequencing Reveals Episomal Prophages Capable of Impacting Virulence Factor Expression in Staphylococcus aureus. Frontiers in microbiology 9, 1406 doi:10.3389/fmicb.2018.01406 (2018).

D. R. Deutsch, B. Utter, K. J. Verratti et al., Extra-Chromosomal DNA Sequencing Reveals Episomal Prophages Capable of Impacting Virulence Factor Expression in Staphylococcus aureus. Frontiers in microbiology 9,  doi:10.3389/fmicb.2018.01406 (2018).

M. Chung, L. Teigen, H. Liu et al., Targeted enrichment outperforms other enrichment techniques and enables more multi-species RNA-Seq analyses. Sci Rep 8, 13377 doi:10.1038/s41598-018-31420-7 (2018).

M. Chung, L. Teigen, S. Libro et al., Multispecies Transcriptomics Data Set of Brugia malayi, Its Wolbachia Endosymbiont wBm, and Aedes aegypti across the B. malayi Life Cycle. Microbiol Resour Announc 7,  doi:10.1128/MRA.01306-18 (2018).

M. Chung, J. B. Munro, H. Tettelin, J. C. Dunning Hotopp, Using Core Genome Alignments To Assign Bacterial Species. mSystems 3,  doi:10.1128/mSystems.00236-18 (2018).

L. Chessum, M. S. Matern, M. C. Kelly et al., Helios is a key transcriptional regulator of outer hair cell maturation. Nature,  doi:10.1038/s41586-018-0728-4 (2018).

C. E. Chandler, A. M. Horspool, P. J. Hill et al., Genomic and phenotypic diversity among ten laboratory isolates of Pseudomonas aeruginosa PAO1. J Bacteriol,  doi:10.1128/JB.00595-18 (2018).

M. V. Cannon, H. Bogale, L. Rutt et al., A high-throughput sequencing assay to comprehensively detect and characterize unicellular eukaryotes and helminths from biological and environmental samples. Microbiome 6, 195 doi:10.1186/s40168-018-0581-6 (2018).

J. S. Bromberg, L. Hittle, Y. Xiong et al., Gut microbiota-dependent modulation of innate immunity and lymph node remodeling affects cardiac allograft outcomes. JCI Insight 3,  doi:10.1172/jci.insight.121045 (2018).

A. M. Andrianaki, I. Kyrmizi, K. Thanopoulou et al., Iron restriction inside macrophages regulates pulmonary host defense against Rhizopus species. Nat Commun 9, 3333 doi:10.1038/s41467-018-05820-2 (2018).

G. Yu, J. Torres, N. Hu et al., Molecular Characterization of the Human Stomach Microbiota in Gastric Cancer Patients. Front Cell Infect Microbiol 7, 302 doi:10.3389/fcimb.2017.00302 (2017).

G. Yu, N. Hu, L. Wang et al., Gastric microbiota features associated with cancer risk factors and clinical outcomes: A pilot study in gastric cardia cancer patients from Shanxi, China. Int J Cancer,  doi:10.1002/ijc.30700 (2017).

H. Tettelin, T. A. Hooven, X. Zhao et al., Whole-Genome Sequences of Bacteremia Isolates of Bordetella holmesii. Genome Announc 5,  doi:10.1128/genomeA.01023-17 (2017).

A. T. Shenoy, T. Brissac, R. P. Gilley et al., Streptococcus pneumoniae in the heart subvert the host response through biofilm-mediated resident macrophage killing. PLoS pathogens 13, e1006582 doi:10.1371/journal.ppat.1006582 (2017).

B. Shannon, T. J. Yi, S. Perusini et al., Association of HPV infection and clearance with cervicovaginal immunology and the vaginal microbiota. Mucosal Immunol,  doi:10.1038/mi.2016.129 (2017).

B. Shannon, P. Gajer, T. J. Yi et al., Distinct effects of the cervico-vaginal microbiota and herpes simplex type 2 infection on female genital tract immunology. J Infect Dis,  doi:10.1093/infdis/jix088 (2017).

J. W. Sahl, J. R. Sistrunk, N. I. Baby et al., Insights into enterotoxigenic Escherichia coli diversity in Bangladesh utilizing genomic epidemiology. Sci Rep 7, 3402 doi:10.1038/s41598-017-03631-x (2017).

K. M. Robinson, A. S. Hawkins, I. Santana-Cruz et al., Aligner optimization increases accuracy and decreases compute times in multi-species sequence data. Microb Genom 3, e000122 doi:10.1099/mgen.0.000122 (2017).

E. P. Price, M. L. Smith, E. E. Paxinos et al., Whole-Genome Sequences of Burkholderia pseudomallei Isolates Exhibiting Decreased Meropenem Susceptibility. Genome Announc 5,  doi:10.1128/genomeA.00053-17 (2017).

A. Panda, S. Nagaraj, X. Zhao, H. Tettelin, L. J. DeTolla, Complete Genome Sequences of Mycobacterium kansasii Strains Isolated from Rhesus Macaques. Genome Announc 5,  doi:10.1128/genomeA.00187-17 (2017).

R. G. Nowak, S. M. Bentzen, J. Ravel et al., Rectal microbiota among HIV-uninfected, untreated HIV, and treated HIV-infected men who have sex with men (MSM) in Nigeria. Aids,  doi:10.1097/QAD.0000000000001409 (2017).

E. F. Mongodin, L. L. Hittle, S. Nadendla et al., Complete Genome Sequence of a Strain of Bifidobacterium pseudolongum Isolated from Mouse Feces and Associated with Improved Organ Transplant Outcome. Genome Announc 5,  doi:10.1128/genomeA.01089-17 (2017).

M. Lin, K. Bachman, Z. Cheng et al., Analysis of complete genome sequence and major surface antigens of Neorickettsia helminthoeca, causative agent of salmon poisoning disease. Microb Biotechnol,  doi:10.1111/1751-7915.12731 (2017).

T. A. Hooven, A. J. Catomeris, M. Bonakdar et al., The Streptococcus agalactiae stringent response enhances virulence and persistence in human blood. Infection and immunity,  doi:10.1128/IAI.00612-17 (2017).

T. H. Hazen, J. Michalski, S. Nagaraj, I. N. Okeke, D. A. Rasko, Characterization of a large antibiotic resistance plasmid found in enteropathogenic Escherichia coli strain B171 and its relatedness to plasmids of diverse E. coli and Shigella. Antimicrob Agents Chemother,  doi:10.1128/AAC.00995-17 (2017).

T. H. Hazen, J. Michalski, Q. Luo et al., Comparative genomics and transcriptomics of Escherichia coli isolates carrying virulence factors of both enteropathogenic and enterotoxigenic E. coli. Sci Rep 7, 3513 doi:10.1038/s41598-017-03489-z (2017).

T. H. Hazen, S. C. Daugherty, A. C. Shetty, J. P. Nataro, D. A. Rasko, Transcriptional Variation of Diverse Enteropathogenic Escherichia coli Isolates under Virulence-Inducing Conditions. mSystems 2,  doi:10.1128/mSystems.00024-17 (2017).

J. C. Dunning Hotopp, B. E. Slatko, J. M. Foster, Targeted Enrichment and Sequencing of Recent Endosymbiont-Host Lateral Gene Transfers. Sci Rep 7, 857 doi:10.1038/s41598-017-00814-4 (2017).

A. Dara, M. A. Travassos, M. Adams et al., A new method for sequencing the hypervariable Plasmodium falciparum gene var2csa from clinical samples. Malar J 16, 343 doi:10.1186/s12936-017-1976-8 (2017).

A. Dara, E. F. Drabek, M. A. Travassos et al., New var reconstruction algorithm exposes high var sequence diversity in a single geographic location in Mali. Genome Med 9, 30 doi:10.1186/s13073-017-0422-4 (2017).

M. A. Conte, W. J. Gammerdinger, K. L. Bartie, D. J. Penman, T. D. Kocher, A high quality assembly of the Nile Tilapia (Oreochromis niloticus) genome reveals the structure of two sex determination regions. BMC genomics 18, 341 doi:10.1186/s12864-017-3723-5 (2017).

J. Chopyk, S. Chattopadhyay, P. Kulkarni et al., Temporal Variations in Cigarette Tobacco Bacterial Community Composition and Tobacco-Specific Nitrosamine Content Are Influenced by Brand and Storage Conditions. Frontiers in microbiology 8, 358 doi:10.3389/fmicb.2017.00358 (2017).

F. Chen, E. P. Szymanski, K. N. Olivier et al., Whole Exome Sequencing Identify the 6q12-q16 Linkage Region and a Candidate Gene TTK for Pulmonary Nontuberculous Mycobacterial Disease. Am J Respir Crit Care Med,  doi:10.1164/rccm.201612-2479OC (2017).

L. L. Bradford, M. Chibucos, B. Ma, V. Bruno, J. Ravel, Vaginal Candida spp. genomes from women with vulvovaginal candidiasis. Pathog Dis,  doi:10.1093/femspd/ftx061 (2017).

G. Yu, M. H. Gail, D. Consonni et al., Characterizing human lung tissue microbiota and its relationship to epidemiological and clinical features. Genome Biol 17, 163 doi:10.1186/s13059-016-1021-1 (2016).

L. Wallace, S. C. Daugherty, S. Nagaraj et al., Use of Comparative Genomics To Characterize the Diversity of Acinetobacter baumannii Surveillance Isolates in a Health Care Institution. Antimicrob Agents Chemother 60, 5933-5941 doi:10.1128/AAC.00477-16 (2016).

S. Riazuddin, M. Hussain, A. Razzaq et al., Exome sequencing of Pakistani consanguineous families identifies 30 novel candidate genes for recessive intellectual disability. Mol Psychiatry,  doi:10.1038/mp.2016.109 (2016).

M. Oren, M. A. Barela Hudgell, B. D’Allura et al., Short tandem repeats, segmental duplications, gene deletion, and genomic instability in a rapidly diversified immune gene family. BMC genomics 17, 900 doi:10.1186/s12864-016-3241-x (2016).

S. R. Leonard, M. K. Mammel, D. A. Rasko, D. W. Lacher, Hybrid Shiga Toxin-Producing and Enterotoxigenic Escherichia sp. Cryptic Lineage 1 Strain 7v Harbors a Hybrid Plasmid. Applied and environmental microbiology 82, 4309-4319 doi:10.1128/AEM.01129-16 (2016).

T. A. Hooven, A. J. Catomeris, L. H. Akabas et al., The essential genome of Streptococcus agalactiae. BMC genomics 17, 406 doi:10.1186/s12864-016-2741-z (2016).

T. H. Hazen, S. R. Leonard, K. A. Lampel et al., Investigating the Relatedness of Enteroinvasive Escherichia coli to Other E. coli and Shigella Isolates by Using Comparative Genomics. Infection and immunity 84, 2362-2371 doi:10.1128/IAI.00350-16 (2016).

F. Del Canto, M. O’Ryan, M. Pardo et al., Chaperone-Usher Pili Loci of Colonization Factor-Negative Human Enterotoxigenic Escherichia coli. Front Cell Infect Microbiol 6, 200 doi:10.3389/fcimb.2016.00200 (2016).

M. C. Chibucos, S. Soliman, T. Gebremariam et al., An integrated genomic and transcriptomic survey of mucormycosis-causing fungi. Nat Commun 7, 12218 doi:10.1038/ncomms12218 (2016).

K. A. Blanchette, A. T. Shenoy, J. Milner, 2nd et al., Neuraminidase A-Exposed Galactose Promotes Streptococcus pneumoniae Biofilm Formation during Colonization. Infection and immunity 84, 2922-2932 doi:10.1128/IAI.00277-16 (2016).

E. P. Szymanski, J. M. Leung, C. J. Fowler et al., Pulmonary Nontuberculous Mycobacterial Infection: A Multisystem Multigenic Disease. Am J Respir Crit Care Med,  doi:10.1164/rccm.201502-0387OC (2015).

H. M. Simpson, R. Z. Khan, C. Song et al., Concurrent Mutations in ATM and Genes Associated with Common gamma Chain Signaling in Peripheral T Cell Lymphoma. PLoS One 10, e0141906 doi:10.1371/journal.pone.0141906 (2015).

F. Sanjar, B. Rusconi, T. H. Hazen et al., Characterization of the pathogenome and phylogenomic classification of enteropathogenic Escherichia coli of the O157:non-H7 serotypes. Pathog Dis,  doi:10.1093/femspd/ftv033 (2015).

J. W. Sahl, J. R. Sistrunk, C. M. Fraser et al., Examination of the Enterotoxigenic Escherichia coli Population Structure during Human Infection. MBio 6,  doi:10.1128/mBio.00501-15 (2015).

J. W. Sahl, C. R. Morris, J. Emberger et al., Defining the phylogenomics of Shigella species: A pathway to diagnostics. J Clin Microbiol,  doi:10.1128/JCM.03527-14 (2015).

R. Rosini, E. Campisi, M. De Chiara et al., Genomic analysis reveals the molecular basis for capsule loss in the group B streptococcus population. PLoS One 10, e0125985 doi:10.1371/journal.pone.0125985 (2015).

J. G. Rodriguez, C. Pino, A. Tauch, M. I. Murcia, Complete Genome Sequence of the Clinical Beijing-Like Strain Mycobacterium tuberculosis 323 Using the PacBio Real-Time Sequencing Platform. Genome Announc 3,  doi:10.1128/genomeA.00371-15 (2015).

I. K. Park, A. P. Hsu, H. Tettelin et al., Clonal diversification, changes in lipid traits and colony morphology in Mycobacterium abscessus clinical isolates. J Clin Microbiol,  doi:10.1128/JCM.02015-15 (2015).

B. M. Nugent, C. L. Wright, A. C. Shetty et al., Brain feminization requires active repression of masculinization via DNA methylation. Nature neuroscience,  doi:10.1038/nn.3988 (2015).

H. Mendes-Soares, V. Krishnan, M. L. Settles et al., Fine-scale analysis of 16S rRNA sequences reveals a high level of taxonomic diversity among vaginal Atopobium spp. Pathog Dis,  doi:10.1093/femspd/ftv020 (2015).

Y. Liu, A. C. Shetty, J. A. Schwartz et al., New signaling pathways govern the host response to C. albicans infection in various niches. Genome research,  doi:10.1101/gr.187427.114 (2015).

M. Jelocnik, N. L. Bachmann, B. Kaltenboeck et al., Genetic diversity in the plasticity zone and the presence of the chlamydial plasmid differentiates Chlamydia pecorum strains from pigs, sheep, cattle, and koalas. BMC genomics 16, 893 doi:10.1186/s12864-015-2053-8 (2015).

T. H. Hazen, P. C. Lafon, N. M. Garrett et al., Insights into the environmental reservoir of pathogenic Vibrio parahaemolyticus using comparative genomics. Frontiers in microbiology 6, 204 doi:10.3389/fmicb.2015.00204 (2015).

T. H. Hazen, S. C. Daugherty, A. Shetty et al., RNA-Seq analysis of isolate- and growth phase-specific differences in the global transcriptomes of enteropathogenic Escherichia coli prototype isolates. Frontiers in microbiology 6, 569 doi:10.3389/fmicb.2015.00569 (2015).

B. E. Goldberg, E. F. Mongodin, C. E. Jones et al., The Oral Bacterial Communities of Children with Well-Controlled HIV Infection and without HIV Infection. PLoS One 10, e0131615 doi:10.1371/journal.pone.0131615 (2015).

J. J. Goedert, Y. Gong, X. Hua et al., Fecal Microbiota Characteristics of Patients with Colorectal Adenoma Detected by Screening: A Population-based Study. EBioMedicine 2, 597-603 doi:10.1016/j.ebiom.2015.04.010 (2015).

E. A. Eloe-Fadrosh, A. Brady, J. Crabtree et al., Functional Dynamics of the Gut Microbiome in Elderly People during Probiotic Consumption. MBio 6,  doi:10.1128/mBio.00231-15 (2015).

R. Elkon, B. Milon, L. Morrison et al., RFX transcription factors are essential for hearing in mice. Nat Commun 6, 8549 doi:10.1038/ncomms9549 (2015).

M. S. Donnenberg, T. H. Hazen, T. H. Farag et al., Bacterial Factors Associated with Lethal Outcome of Enteropathogenic Escherichia coli Infection: Genomic Case-Control Studies. PLoS neglected tropical diseases 9, e0003791 doi:10.1371/journal.pntd.0003791 (2015).

E. O. Dareng, B. Ma, A. O. Famooto et al., Prevalent high-risk HPV infection and vaginal microbiota in Nigerian women. Epidemiology and infection, 1-15 doi:10.1017/S0950268815000965 (2015).

M. C. Chibucos, K. A. Etienne, J. Orvis et al., The genome sequence of four isolates from the family Lichtheimiaceae. Pathog Dis,  doi:10.1093/femspd/ftv024 (2015).

S. T. Chancey, X. Bai, N. Kumar et al., Transcriptional Attenuation Controls Macrolide Inducible Efflux and Resistance in Streptococcus pneumoniae and in Other Gram-Positive Bacteria Containing mef/mel(msr(D)) Elements. PLoS One 10, e0116254 doi:10.1371/journal.pone.0116254 (2015).

S. T. Chancey, S. Agrawal, M. R. Schroeder et al., Composite mobile genetic elements disseminating macrolide resistance in Streptococcus pneumoniae. Frontiers in microbiology 6, 26 doi:10.3389/fmicb.2015.00026 (2015).

J. C. Castillo, T. Creasy, P. Kumari et al., Drosophila anti-nematode and antibacterial immune regulators revealed by RNA-Seq. BMC genomics 16, 519 doi:10.1186/s12864-015-1690-2 (2015).

B. L. Cantarel, E. Waubant, C. Chehoud et al., Gut Microbiota in Multiple Sclerosis: Possible Influence of Immunomodulators. Journal of investigative medicine : the official publication of the American Federation for Clinical Research,  doi:10.1097/JIM.0000000000000192 (2015).

V. M. Bruno, A. C. Shetty, J. Yano et al., Transcriptomic Analysis of Vulvovaginal Candidiasis Identifies a Role for the NLRP3 Inflammasome. MBio 6,  doi:10.1128/mBio.00182-15 (2015).

R. A. Brady, V. M. Bruno, D. L. Burns, RNA-Seq Analysis of the Host Response to Staphylococcus aureus Skin and Soft Tissue Infection in a Mouse Model. PLoS One 10, e0124877 doi:10.1371/journal.pone.0124877 (2015).

W. Wang, B. Feng, J. Xiao et al., Cassava genome from a wild ancestor to cultivated varieties. Nat Commun 5, 5110 doi:10.1038/ncomms6110 (2014).

A. Veluchamy, X. Lin, F. Maumus et al., Corrigendum: Insights into the role of DNA methylation in diatoms by genome-wide profiling in Phaeodactylum tricornutum. Nat Commun 5, 3028 doi:10.1038/ncomms4028 (2014).

H. Tettelin, R. M. Davidson, S. Agrawal et al., High-level Relatedness among Mycobacterium abscessus subsp. massiliense Strains from Widely Separated Outbreaks. Emerging infectious diseases 20, 364-371 doi:10.3201/eid2003.131106 (2014).

L. J. Tallon, X. Liu, S. Bennuru et al., Single molecule sequencing and genome assembly of a clinical specimen of Loa loa, the causative agent of loiasis. BMC genomics 15, 788 doi:10.1186/1471-2164-15-788 (2014).

F. Sanjar, T. H. Hazen, S. M. Shah et al., Genome Sequence of Escherichia coli O157:H7 Strain 2886-75, Associated with the First Reported Case of Human Infection in the United States. Genome Announc 2,  doi:10.1128/genomeA.01120-13 (2014).

M. Sait, M. Livingstone, E. M. Clark et al., Genome sequencing and comparative analysis of three Chlamydia pecorum strains associated with different pathogenic outcomes. BMC genomics 15, 23 doi:10.1186/1471-2164-15-23 (2014).

Q. Luo, P. Kumar, T. J. Vickers et al., Enterotoxigenic Escherichia coli Secretes a Highly Conserved Mucin-Degrading Metalloprotease To Effectively Engage Intestinal Epithelial Cells. Infection and immunity 82, 509-521 doi:10.1128/IAI.01106-13 (2014).

S. B. Liggett, Y. A. Bochkov, T. Pappas et al., Genome sequences of rhinovirus a isolates from wisconsin pediatric respiratory studies. Genome Announc 2,  doi:10.1128/genomeA.00200-14 (2014).

S. B. Liggett, Y. A. Bochkov, T. Pappas et al., Genome sequences of rhinovirus B isolates from wisconsin pediatric respiratory studies. Genome Announc 2,  doi:10.1128/genomeA.00202-14 (2014).

S. B. Liggett, Y. A. Bochkov, T. Pappas et al., Genome sequences of rhinovirus C isolates from wisconsin pediatric respiratory studies. Genome Announc 2,  doi:10.1128/genomeA.00203-14 (2014).

L. Klasson, N. Kumar, R. Bromley et al., Extensive duplication of the Wolbachia DNA in chromosome four of Drosophila ananassae. BMC genomics 15, 1097 doi:10.1186/1471-2164-15-1097 (2014).

A. C. Jacobs, M. G. Thompson, C. C. Black et al., AB5075, a Highly Virulent Isolate of Acinetobacter baumannii, as a Model Strain for the Evaluation of Pathogenesis and Antimicrobial Treatments. MBio 5,  doi:10.1128/mBio.01076-14 (2014).

P. Ioannidis, Y. Lu, N. Kumar et al., Rapid transcriptome sequencing of an invasive pest, the brown marmorated stink bug Halyomorpha halys. BMC genomics 15, 738 doi:10.1186/1471-2164-15-738 (2014).

H. D. Hosgood, 3rd, A. R. Sapkota, N. Rothman et al., The potential role of lung microbiota in lung cancer attributed to household coal burning exposures. Environmental and molecular mutagenesis,  doi:10.1002/em.21878 (2014).

T. H. Hazen, L. Zhao, J. W. Sahl et al., Characterization of Klebsiella sp. 10982, a colonizer of humans that contains novel antibiotic resistance alleles and exhibits genetic similarities to plant and clinical Klebsiella isolates. Antimicrob Agents Chemother,  doi:10.1128/AAC.01605-13 (2014).

T. H. Hazen, L. Zhao, M. A. Boutin et al., Comparative genomics of an IncA/C multidrug resistance plasmid from Escherichia coli and Klebsiella species isolated from ICU patients: the utility of whole genome sequencing in healthcare settings. Antimicrob Agents Chemother,  doi:10.1128/AAC.02573-14 (2014).

T. H. Hazen, M. S. Humphrys, J. B. Ochieng et al., Draft Genome Sequences of Nine Enteropathogenic Escherichia coli Strains from Kenya. Genome Announc 2,  doi:10.1128/genomeA.00582-14 (2014).

D. W. Fadrosh, B. Ma, P. Gajer et al., An improved dual-indexing approach for multiplexed 16S rRNA gene sequencing on the Illumina MiSeq platform. Microbiome 2, 6 doi:10.1186/2049-2618-2-6 (2014).

K. A. Etienne, M. C. Chibucos, Q. Su et al., Draft Genome Sequence of Mortierella alpina Isolate CDC-B6842. Genome Announc 2,  doi:10.1128/genomeA.01180-13 (2014).

M. Eppinger, T. Pearson, S. S. Koenig et al., Genomic epidemiology of the haitian cholera outbreak: a single introduction followed by rapid, extensive, and continued spread characterized the onset of the epidemic. MBio 5,  doi:10.1128/mBio.01721-14 (2014).

V. G. Dugan, S. J. Emrich, G. I. Giraldo-Calderon et al., Standardized metadata for human pathogen/vector genomic sequences. PLoS One 9, e99979 doi:10.1371/journal.pone.0099979 (2014).

M. Donati, H. Huot-Creasy, M. Humphrys et al., Genome Sequence of Chlamydia suis MD56, Isolated from the Conjunctiva of a Weaned Piglet. Genome Announc 2,  doi:10.1128/genomeA.00425-14 (2014).

O. Delaneau, J. Marchini, C. Genomes Project, C. Genomes Project, Integrating sequence and array data to create an improved 1000 Genomes Project haplotype reference panel. Nat Commun 5, 3934 doi:10.1038/ncomms4934 (2014).

V. Colonna, Q. Ayub, Y. Chen et al., Human genomic regions with exceptionally high levels of population differentiation identified from 911 whole-genome sequences. Genome Biol 15, R88 doi:10.1186/gb-2014-15-6-r88 (2014).

S. Zubair, E. P. de Villiers, M. Younan et al., Genome Sequences of Two Pathogenic Streptococcus agalactiae Isolates from the One-Humped Camel Camelus dromedarius. Genome Announc 1,  doi:10.1128/genomeA.00515-13 (2013).

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