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  1. Research article

    The transcriptome of a “sleeping” invader: de novo assembly and annotation of the transcriptome of aestivating Cornu aspersum

    Cornu aspersum is a quite intriguing species from the point of view of ecology and evolution and its potential use in medical and environmental applications. It is a species of economi...

    Aristeidis Parmakelis, Panayiota Kotsakiozi, Christos K. Kontos, Panagiotis G. Adamopoulos and Andreas Scorilas

    BMC Genomics 2017 18:491

    Published on: 28 June 2017

  2. Research article

    Comparative transcriptome analysis of shoot and root tissue of Bacopa monnieri identifies potential genes related to triterpenoid saponin biosynthesis

    Bacopa monnieri commonly known as Brahmi is utilized in Ayurveda to improve memory and many other human health benefits. Bacosides enriched standardized extract of Bacopa monnieri is b...

    Gajendra Singh Jeena, Shahnoor Fatima, Pragya Tripathi, Swati Upadhyay and Rakesh Kumar Shukla

    BMC Genomics 2017 18:490

    Published on: 28 June 2017

  3. Research article

    Coping with living in the soil: the genome of the parthenogenetic springtail Folsomia candida

    Folsomia candida is a model in soil biology, belonging to the family of Isotomidae, subclass Collembola. It reproduces parthenogenetically in the presence of Wolbachia, and exhibits re...

    Anna Faddeeva-Vakhrusheva, Ken Kraaijeveld, Martijn F. L. Derks, Seyed Yahya Anvar, Valeria Agamennone, Wouter Suring, Andries A. Kampfraath, Jacintha Ellers, Giang Le Ngoc, Cornelis A. M. van Gestel, Janine Mariën, Sandra Smit, Nico M. van Straalen and Dick Roelofs

    BMC Genomics 2017 18:493

    Published on: 28 June 2017

  4. Research article

    The genome-wide transcription response to telomerase deficiency in the thermotolerant yeast Hansenula polymorpha DL-1

    In the course of replication of eukaryotic chromosomes, the telomere length is maintained due to activity of telomerase, the ribonucleoprotein reverse transcriptase. Abolishing telomerase function causes progr...

    Alexey V. Beletsky, Alexander N. Malyavko, Maria V. Sukhanova, Eugenia S. Mardanova, Maria I. Zvereva, Olga A. Petrova, Yulia Yu. Parfenova, Maria P. Rubtsova, Andrey V. Mardanov, Olga I. Lavrik, Olga A. Dontsova and Nikolai V. Ravin

    BMC Genomics 2017 18:492

    Published on: 28 June 2017

  5. Research article

    Genome-wide identification and expression analysis of SBP-like transcription factor genes in Moso Bamboo (Phyllostachys edulis)

    The SQUAMOSA promoter binding protein-like (SPL) proteins are plant-specific transcription factors (TFs) that function in a variety of developmental processes including growth, flower development, and signal tran...

    Feng Pan, Yue Wang, Huanglong Liu, Min Wu, Wenyuan Chu, Danmei Chen and Yan Xiang

    BMC Genomics 2017 18:486

    Published on: 27 June 2017

  6. Research article

    Genomic, proteomic and bioinformatic analysis of two temperate phages in Roseobacter clade bacteria isolated from the deep-sea water

    Marine phages are spectacularly diverse in nature. Dozens of roseophages infecting members of Roseobacter clade bacteria were isolated and characterized, exhibiting a very high degree of genetic diversity. In the...

    Kai Tang, Dan Lin, Qiang Zheng, Keshao Liu, Yujie Yang, Yu Han and Nianzhi Jiao

    BMC Genomics 2017 18:485

    Published on: 27 June 2017

  7. Editorial

    Functional Annotation of All Salmonid Genomes (FAASG): an international initiative supporting future salmonid research, conservation and aquaculture

    We describe an emerging initiative - the ‘Functional Annotation of All Salmonid Genomes’ (FAASG), which will leverage the extensive trait diversity that has evolved since a whole genome duplication event in th...

    Daniel J. Macqueen, Craig R. Primmer, Ross D. Houston, Barbara F. Nowak, Louis Bernatchez, Steinar Bergseth, William S. Davidson, Cristian Gallardo-Escárate, Tom Goldammer, Yann Guiguen, Patricia Iturra, James W. Kijas, Ben F. Koop, Sigbjørn Lien, Alejandro Maass, Samuel A. M. Martin…

    BMC Genomics 2017 18:484

    Published on: 27 June 2017

  8. 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

  9. 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

  10. 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

  11. 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

  12. 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

  13. 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

  14. 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

  15. 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

  16. 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

  17. 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

  18. 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

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