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  1. Database

    SalmoBase: an integrated molecular data resource for Salmonid species

    Salmonids are ray-finned fishes which constitute 11 genera and at least 70 species including Atlantic salmon, whitefishes, graylings, rainbow trout, and char. The common ancestor of all Salmonidae experienced ...

    Jeevan Karloss Antony Samy, Teshome Dagne Mulugeta, Torfinn Nome, Simen Rød Sandve, Fabian Grammes, Matthew Peter Kent, Sigbjørn Lien and Dag Inge Våge

    BMC Genomics 2017 18:482

    Published on: 26 June 2017

  2. Methodology article

    Improved methods and resources for paramecium genomics: transcription units, gene annotation and gene expression

    The 15 sibling species of the Paramecium aurelia cryptic species complex emerged after a whole genome duplication that occurred tens of millions of years ago. Given extensive knowledge of the genetics and epigene...

    Olivier Arnaiz, Erwin Van Dijk, Mireille Bétermier, Maoussi Lhuillier-Akakpo, Augustin de Vanssay, Sandra Duharcourt, Erika Sallet, Jérôme Gouzy and Linda Sperling

    BMC Genomics 2017 18:483

    Published on: 26 June 2017

  3. Research article

    Systematic discovery of novel eukaryotic transcriptional regulators using sequence homology independent prediction

    The molecular function of a gene is most commonly inferred by sequence similarity. Therefore, genes that lack sufficient sequence similarity to characterized genes (such as certain classes of transcriptional r...

    Flavia Bossi, Jue Fan, Jun Xiao, Lilyana Chandra, Max Shen, Yanniv Dorone, Doris Wagner and Seung Y. Rhee

    BMC Genomics 2017 18:480

    Published on: 26 June 2017

  4. Research article

    Fine-mapping host genetic variation underlying outcomes to Mycobacterium bovis infection in dairy cows

    Susceptibility to Mycobacterium bovis infection in cattle is governed in part by host genetics. However, cattle diagnosed as infected with M. bovis display varying signs of pathology. The variation in host respon...

    S. Wilkinson, S.C. Bishop, A.R. Allen, S.H. McBride, R.A. Skuce, M. Bermingham, J.A. Woolliams and E.J. Glass

    BMC Genomics 2017 18:477

    Published on: 24 June 2017

  5. Research article

    A high-quality annotated transcriptome of swine peripheral blood

    High throughput gene expression profiling assays of peripheral blood are widely used in biomedicine, as well as in animal genetics and physiology research. Accurate, comprehensive, and precise interpretation o...

    Haibo Liu, Timothy P.L. Smith, Dan J. Nonneman, Jack C.M. Dekkers and Christopher K. Tuggle

    BMC Genomics 2017 18:479

    Published on: 24 June 2017

  6. Research article

    Genome analysis of Diploscapter coronatus: insights into molecular peculiarities of a nematode with parthenogenetic reproduction

    Sexual reproduction involving the fusion of egg and sperm is prevailing among eukaryotes. In contrast, the nematode Diploscapter coronatus, a close relative of the model Caenorhabditis elegans, reproduces parthen...

    Hideaki Hiraki, Hiroshi Kagoshima, Christopher Kraus, Philipp H. Schiffer, Yumiko Ueta, Michael Kroiher, Einhard Schierenberg and Yuji Kohara

    BMC Genomics 2017 18:478

    Published on: 24 June 2017

  7. Research article

    Genome-wide analysis of DNA methylation in hypothalamus and ovary of Capra hircus

    DNA methylation is a frequently studied epigenetic modification due to its role in regulating gene expression and hence in biological processes and in determining phenotypic plasticity in organisms. Rudimentar...

    Stefano Frattini, Emanuele Capra, Barbara Lazzari, Stephanie D. McKay, Beatrice Coizet, Andrea Talenti, Debora Groppetti, Pietro Riccaboni, Alessandro Pecile, Stefania Chessa, Bianca Castiglioni, John L. Williams, Giulio Pagnacco, Alessandra Stella and Paola Crepaldi

    BMC Genomics 2017 18:476

    Published on: 23 June 2017

  8. Research article

    Genome-wide analysis of UDP-glycosyltransferase super family in Brassica rapa and Brassica oleracea reveals its evolutionary history and functional characterization

    Glycosyltransferases comprise a highly divergent and polyphyletic multigene family that is involved in widespread modification of plant secondary metabolites in a process called glycosylation. According to con...

    Jingyin Yu, Fan Hu, Komivi Dossa, Zhaokai Wang and Tao Ke

    BMC Genomics 2017 18:474

    Published on: 23 June 2017

  9. Research article

    Transcriptomic dynamics in soybean near-isogenic lines differing in alleles for an aphid resistance gene, following infestation by soybean aphid biotype 2

    Genetic resistance of soybean [Glycine max (L.) Merr] against Aphis glycines provides effective management of this invasive pest, though the underlying molecular mechanisms are largely unknown. This study aimed t...

    Sungwoo Lee, Bryan J. Cassone, Asela Wijeratne, Tae-Hwan Jun, Andrew P. Michel and M.A. Rouf Mian

    BMC Genomics 2017 18:472

    Published on: 23 June 2017

  10. Research article

    Differential gene expression at different stages of mesocarp development in high- and low-yielding oil palm

    The oil yield trait of oil palm is expected to involve multiple genes, environmental influences and interactions. Many of the underlying mechanisms that contribute to oil yield are still poorly understood. In ...

    Yick Ching Wong, Huey Fang Teh, Katharina Mebus, Tony Eng Keong Ooi, Qi Bin Kwong, Ka Loo Koo, Chuang Kee Ong, Sean Mayes, Fook Tim Chew, David R. Appleton and Harikrishna Kulaveerasingam

    BMC Genomics 2017 18:470

    Published on: 21 June 2017

  11. Research article

    Biological mechanisms discriminating growth rate and adult body weight phenotypes in two Chinese indigenous chicken breeds

    Intensive selection has resulted in increased growth rates and muscularity in broiler chickens, in addition to adverse effects, including delayed organ development, sudden death syndrome, and altered metabolic...

    Tengfei Dou, Sumei Zhao, Hua Rong, Dahai Gu, Qihua Li, Ying Huang, Zhiqiang Xu, Xiaohui Chu, Linli Tao, Lixian Liu, Changrong Ge, Marinus F.W. te Pas and Junjing Jia

    BMC Genomics 2017 18:469

    Published on: 20 June 2017

  12. Research article

    Construction of high-density genetic map and QTL mapping of yield-related and two quality traits in soybean RILs population by RAD-sequencing

    One of the overarching goals of soybean breeding is to develop lines that combine increased yield with improved quality characteristics. High-density-marker QTL mapping can serve as an effective strategy to id...

    Nianxi Liu, Mu Li, Xiangbao Hu, Qibin Ma, Yinghui Mu, Zhiyuan Tan, Qiuju Xia, Gengyun Zhang and Hai Nian

    BMC Genomics 2017 18:466

    Published on: 19 June 2017

  13. Research article

    A reference genome for Nicotiana tabacum enables map-based cloning of homeologous loci implicated in nitrogen utilization efficiency

    Tobacco (Nicotiana tabacum) is an important plant model system that has played a key role in the early development of molecular plant biology. The tobacco genome is large and its characterisation challenging beca...

    K. D. Edwards, N. Fernandez-Pozo, K. Drake-Stowe, M. Humphry, A. D. Evans, A. Bombarely, F. Allen, R. Hurst, B. White, S. P. Kernodle, J. R. Bromley, J. P. Sanchez-Tamburrino, R. S. Lewis and L. A. Mueller

    BMC Genomics 2017 18:448

    Published on: 19 June 2017

  14. Research article

    The biocontrol agent Pseudomonas chlororaphis PA23 primes Brassica napus defenses through distinct gene networks

    The biological control agent Pseudomonas chlororaphis PA23 is capable of protecting Brassica napus (canola) from the necrotrophic fungus Sclerotinia sclerotiorum via direct antagonism. While we have elucidated ba...

    Kelly A. Duke, Michael G. Becker, Ian J. Girard, Jenna L. Millar, W. G. Dilantha Fernando, Mark F. Belmonte and Teresa R. de Kievit

    BMC Genomics 2017 18:467

    Published on: 19 June 2017

  15. Research article

    Genome and Transcriptome sequence of Finger millet (Eleusine coracana (L.) Gaertn.) provides insights into drought tolerance and nutraceutical properties

    Finger millet (Eleusine coracana (L.) Gaertn.) is an important staple food crop widely grown in Africa and South Asia. Among the millets, finger millet has high amount of calcium, methionine, tryptophan, fiber, a...

    Shailaja Hittalmani, H. B. Mahesh, Meghana Deepak Shirke, Hanamareddy Biradar, Govindareddy Uday, Y. R. Aruna, H. C. Lohithaswa and A. Mohanrao

    BMC Genomics 2017 18:465

    Published on: 15 June 2017

  16. Research article

    Loci and candidate genes conferring resistance to soybean cyst nematode HG type 2.5.7

    Soybean (Glycine max L. Merr.) cyst nematode (SCN, Heterodera glycines I,) is a major pest of soybean worldwide. The most effective strategy to control this pest involves the use of resistant cultivars. The aim o...

    Xue Zhao, Weili Teng, Yinghui Li, Dongyuan Liu, Guanglu Cao, Dongmei Li, Lijuan Qiu, Hongkun Zheng, Yingpeng Han and Wenbin Li

    BMC Genomics 2017 18:462

    Published on: 14 June 2017

  17. Research article

    Genome wide association study and genomic prediction for fatty acid composition in Chinese Simmental beef cattle using high density SNP array

    Fatty acid composition of muscle is an important trait contributing to meat quality. Recently, genome-wide association study (GWAS) has been extensively used to explore the molecular mechanism underlying impor...

    Bo Zhu, Hong Niu, Wengang Zhang, Zezhao Wang, Yonghu Liang, Long Guan, Peng Guo, Yan Chen, Lupei Zhang, Yong Guo, Heming Ni, Xue Gao, Huijiang Gao, Lingyang Xu and Junya Li

    BMC Genomics 2017 18:464

    Published on: 14 June 2017

  18. Research article

    Integrated metabolome and transcriptome analysis of Magnolia champaca identifies biosynthetic pathways for floral volatile organic compounds

    Magnolia champaca, commonly known as champak is a well-known tree due to its highly fragrant flowers. Champak floral scent is attributed to a complex mix of volatile organic compounds ...

    Savitha Dhandapani, Jingjing Jin, Vishweshwaran Sridhar, Rajani Sarojam, Nam-Hai Chua and In-Cheol Jang

    BMC Genomics 2017 18:463

    Published on: 14 June 2017

  19. Research article

    100 million years of multigene family evolution: origin and evolution of the avian MHC class IIB

    Gene duplication has led to a most remarkable adaptation involved in vertebrates’ host-pathogen arms-race, the major histocompatibility complex (MHC). However, MHC duplication history is as yet poorly understo...

    Julien Goebel, Marta Promerová, Francesco Bonadonna, Karen D. McCoy, Céline Serbielle, Maria Strandh, Glenn Yannic, Reto Burri and Luca Fumagalli

    BMC Genomics 2017 18:460

    Published on: 13 June 2017

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