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  1. Research article

    A comprehensive proteogenomic study of the human Brucella vaccine strain 104 M

    Brucella spp. are Gram-negative, facultative intracellular pathogens that cause brucellosis in both humans and animals. The B. abortus vaccine strain 104 M is the only vaccine availabl...

    Xiaodong Zai, Qiaoling Yang, Kun Liu, Ruihua Li, Mengying Qian, Taoran Zhao, Yaohui Li, Ying Yin, Dayong Dong, Ling Fu, Shanhu Li, Junjie Xu and Wei Chen

    BMC Genomics 2017 18:402

    Published on: 23 May 2017

  2. Research article

    Identification of putative olfactory G-protein coupled receptors in Crown-of-Thorns starfish, Acanthaster planci

    In marine organisms, and in particular for benthic invertebrates including echinoderms, olfaction is a dominant sense with chemosensation being a critical signalling process. Until recently natural product che...

    Rebecca E. Roberts, Cherie A. Motti, Kenneth W. Baughman, Noriyuki Satoh, Michael R. Hall and Scott F. Cummins

    BMC Genomics 2017 18:400

    Published on: 23 May 2017

  3. Research article

    Differentially expressed genes from RNA-Seq and functional enrichment results are affected by the choice of single-end versus paired-end reads and stranded versus non-stranded protocols

    RNA-Seq is now widely used as a research tool. Choices must be made whether to use paired-end (PE) or single-end (SE) sequencing, and whether to use strand-specific or non-specific (NS) library preparation kit...

    Susan M. Corley, Karen L. MacKenzie, Annemiek Beverdam, Louise F. Roddam and Marc R. Wilkins

    BMC Genomics 2017 18:399

    Published on: 23 May 2017

  4. Research article

    De novo transcriptome analysis and glucosinolate profiling in watercress (Nasturtium officinale R. Br.)

    Watercress (Nasturtium officinale R. Br.) is an aquatic herb species that is a rich source of secondary metabolites such as glucosinolates. Among these glucosinolates, watercress contains high amounts of gluconas...

    Jin Jeon, Sun Ju Bong, Jong Seok Park, Young-Kyu Park, Mariadhas Valan Arasu, Naif Abdullah Al-Dhabi and Sang Un Park

    BMC Genomics 2017 18:401

    Published on: 23 May 2017

  5. Research article

    A survey of the complex transcriptome from the highly polyploid sugarcane genome using full-length isoform sequencing and de novo assembly from short read sequencing

    Despite the economic importance of sugarcane in sugar and bioenergy production, there is not yet a reference genome available. Most of the sugarcane transcriptomic studies have been based on Saccharum officinarum

    Nam V. Hoang, Agnelo Furtado, Patrick J. Mason, Annelie Marquardt, Lakshmi Kasirajan, Prathima P. Thirugnanasambandam, Frederik C. Botha and Robert J. Henry

    BMC Genomics 2017 18:395

    Published on: 22 May 2017

  6. Research article

    Extremely low-coverage whole genome sequencing in South Asians captures population genomics information

    The cost of Whole Genome Sequencing (WGS) has decreased tremendously in recent years due to advances in next-generation sequencing technologies. Nevertheless, the cost of carrying out large-scale cohort studie...

    Navin Rustagi, Anbo Zhou, W. Scott Watkins, Erika Gedvilaite, Shuoguo Wang, Naveen Ramesh, Donna Muzny, Richard A. Gibbs, Lynn B. Jorde, Fuli Yu and Jinchuan Xing

    BMC Genomics 2017 18:396

    Published on: 22 May 2017

  7. Research article

    Hierarchical genomic analysis of carried and invasive serogroup A Neisseria meningitidis during the 2011 epidemic in Chad

    Serogroup A Neisseria meningitidis (NmA) was the cause of the 2011 meningitis epidemics in Chad. This bacterium, often carried asymptomatically, is considered to be an “accidental pathogen”; however, the transiti...

    Kanny Diallo, Kadija Gamougam, Doumagoum M. Daugla, Odile B. Harrison, James E. Bray, Dominique A. Caugant, Jay Lucidarme, Caroline L. Trotter, Musa Hassan-King, James M. Stuart, Olivier Manigart, Brian M. Greenwood and Martin C. J. Maiden

    BMC Genomics 2017 18:398

    Published on: 22 May 2017

  8. Research article

    Comparative genomics of Eucalyptus and Corymbia reveals low rates of genome structural rearrangement

    Previous studies suggest genome structure is largely conserved between Eucalyptus species. However, it is unknown if this conservation extends to more divergent eucalypt taxa. We performed comparative genomics be...

    J. B. Butler, R. E. Vaillancourt, B. M. Potts, D. J. Lee, G. J. King, A. Baten, M. Shepherd and J. S. Freeman

    BMC Genomics 2017 18:397

    Published on: 22 May 2017

  9. Research article

    Transversions have larger regulatory effects than transitions

    Transversions (Tv’s) are more likely to alter the amino acid sequence of proteins than transitions (Ts’s), and local deviations in the Ts:Tv ratio are indicative of evolutionary selection on genes. Whether the...

    Cong Guo, Ian C. McDowell, Michael Nodzenski, Denise M. Scholtens, Andrew S. Allen, William L. Lowe and Timothy E. Reddy

    BMC Genomics 2017 18:394

    Published on: 19 May 2017

  10. Research article

    Genome-wide association study for feed efficiency and growth traits in U.S. beef cattle

    Single nucleotide polymorphism (SNP) arrays for domestic cattle have catalyzed the identification of genetic markers associated with complex traits for inclusion in modern breeding and selection programs. Usin...

    Christopher M. Seabury, David L. Oldeschulte, Mahdi Saatchi, Jonathan E. Beever, Jared E. Decker, Yvette A. Halley, Eric K. Bhattarai, Maral Molaei, Harvey C. Freetly, Stephanie L. Hansen, Helen Yampara-Iquise, Kristen A. Johnson, Monty S. Kerley, JaeWoo Kim, Daniel D. Loy, Elisa Marques…

    BMC Genomics 2017 18:386

    Published on: 18 May 2017

  11. Research article

    Higher-order organisation of extremely amplified, potentially functional and massively methylated 5S rDNA in European pikes (Esox sp.)

    Pikes represent an important genus (Esox) harbouring a pre-duplication karyotype (2n = 2x = 50) of economically important salmonid pseudopolyploids. Here, we have characterized the 5S ribosomal RNA genes (rDNA) i...

    Radka Symonová, Konrad Ocalewicz, Lech Kirtiklis, Giovanni Battista Delmastro, Šárka Pelikánová, Sonia Garcia and Aleš Kovařík

    BMC Genomics 2017 18:391

    Published on: 18 May 2017

  12. Research article

    The midgut transcriptome of Aedes aegypti fed with saline or protein meals containing chikungunya virus reveals genes potentially involved in viral midgut escape

    The mosquito Aedes aegypti is the primary vector for medically important arthropod-borne viruses, including chikungunya virus (CHIKV). Following oral acquisition, an arbovirus has to persistently infect several o...

    Shengzhang Dong, Susanta K. Behura and Alexander W. E. Franz

    BMC Genomics 2017 18:382

    Published on: 15 May 2017

  13. Methodology article

    Transcription factor-associated combinatorial epigenetic pattern reveals higher transcriptional activity of TCF7L2-regulated intragenic enhancers

    Recent studies have suggested that combinations of multiple epigenetic modifications are essential for controlling gene expression. Despite numerous computational approaches have been developed to decipher the...

    Qi Liu, Russell Bonneville, Tianbao Li and Victor X. Jin

    BMC Genomics 2017 18:375

    Published on: 12 May 2017

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