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  1. Research

    Comparative transcriptome analysis and identification of candidate effectors in two related rust species (Gymnosporangium yamadae and Gymnosporangium asiaticum)

    Rust fungi constitute the largest group of plant fungal pathogens. However, a paucity of data, including genomic sequences, transcriptome sequences, and associated molecular markers, hinders the development of...

    Si-Qi Tao, Bin Cao, Cheng-Ming Tian and Ying-Mei Liang

    BMC Genomics 2017 18:651

    Published on: 23 August 2017

  2. Research

    Genetic and codon usage bias analyses of polymerase genes of equine influenza virus and its relation to evolution

    Equine influenza is a major health problem of equines worldwide. The polymerase genes of influenza virus have key roles in virus replication, transcription, transmission between hosts and pathogenesis. Hence, ...

    Bidhan Ch. Bera, Nitin Virmani, Naveen Kumar, Taruna Anand, S Pavulraj, Adam Rash, Debra Elton, Nicola Rash, Sandeep Bhatia, Richa Sood, Raj Kumar Singh and Bhupendra Nath Tripathi

    BMC Genomics 2017 18:652

    Published on: 23 August 2017

  3. Research article

    Whole genome sequencing and comparative transcriptome analysis of a novel seawater adapted, salt-resistant rice cultivar – sea rice 86

    Rice (Oryza sativa) is critical for human nutrition worldwide. Due to a growing population, cultivars that produce high yields in high salinity soil are of major importance. Here we describe the discovery and mol...

    Risheng Chen, Yunfeng Cheng, Suying Han, Ben Van Handel, Ling Dong, Xinmin Li and Xiaoqing Xie

    BMC Genomics 2017 18:655

    Published on: 23 August 2017

  4. Research article

    Natural variation in stress response gene activity in the allopolyploid Arabidopsis suecica

    Allopolyploids contain genomes composed of more than two complete sets of chromosomes that originate from at least two species. Allopolyploidy has been suggested as an important evolutionary mechanism that can...

    Keisha D. Carlson, Noe Fernandez-Pozo, Aureliano Bombarely, Rahul Pisupati, Lukas A. Mueller and Andreas Madlung

    BMC Genomics 2017 18:653

    Published on: 23 August 2017

  5. Research article

    Comparative mitochondrial proteomic, physiological, biochemical and ultrastructural profiling reveal factors underpinning salt tolerance in tetraploid black locust (Robinia pseudoacacia L.)

    Polyploidy is an important phenomenon in plants because of its roles in agricultural and forestry production as well as in plant tolerance to environmental stresses. Tetraploid black locust (Robinia pseudoacacia ...

    Qiuxiang Luo, Mu Peng, Xiuli Zhang, Pei Lei, Ximei Ji, Wahsoon Chow, Fanjuan Meng and Guanyu Sun

    BMC Genomics 2017 18:648

    Published on: 22 August 2017

  6. Research article

    Comparing the intestinal transcriptome of Meishan and Large White piglets during late fetal development reveals genes involved in glucose and lipid metabolism and immunity as valuable clues of intestinal maturity

    Maturity of intestinal functions is critical for neonatal health and survival, but comprehensive description of mechanisms underlying intestinal maturation that occur during late gestation still remain poorly ...

    Ying Yao, Valentin Voillet, Maeva Jegou, Magali SanCristobal, Samir Dou, Véronique Romé, Yannick Lippi, Yvon Billon, Marie-Christine Père, Gaëlle Boudry, Laure Gress, Nathalie Iannucelli, Pierre Mormède, Hélène Quesnel, Laurianne Canario, Laurence Liaubet…

    BMC Genomics 2017 18:647

    Published on: 22 August 2017

  7. Research article

    Physical mapping of QTL for tuber yield, starch content and starch yield in tetraploid potato (Solanum tuberosum L.) by means of genome wide genotyping by sequencing and the 8.3 K SolCAP SNP array

    Tuber yield and starch content of the cultivated potato are complex traits of decisive importance for breeding improved varieties. Natural variation of tuber yield and starch content depends on the environment...

    Elske Maria Schönhals, Jia Ding, Enrique Ritter, Maria João Paulo, Nicolás Cara, Ekhard Tacke, Hans-Reinhard Hofferbert, Jens Lübeck, Josef Strahwald and Christiane Gebhardt

    BMC Genomics 2017 18:642

    Published on: 22 August 2017

  8. Software

    unitas: the universal tool for annotation of small RNAs

    Next generation sequencing is a key technique in small RNA biology research that has led to the discovery of functionally different classes of small non-coding RNAs in the past years. However, reliable annotat...

    Daniel Gebert, Charlotte Hewel and David Rosenkranz

    BMC Genomics 2017 18:644

    Published on: 22 August 2017

  9. Research article

    Identification of QTLs controlling aroma volatiles using a ‘Fortune’ x ‘Murcott’ (Citrus reticulata) population

    Flavor is an important attribute of mandarin (Citrus reticulata Blanco), but flavor improvement via conventional breeding is very challenging largely due to the complexity of the flavor components and traits. Man...

    Yuan Yu, Jinhe Bai, Chunxian Chen, Anne Plotto, Qibin Yu, Elizabeth A. Baldwin and Frederick G. Gmitter Jr

    BMC Genomics 2017 18:646

    Published on: 22 August 2017

  10. Research article

    Genomic analysis of methanogenic archaea reveals a shift towards energy conservation

    The metabolism of archaeal methanogens drives methane release into the environment and is critical to understanding global carbon cycling. Methanogenesis operates at a very low reducing potential compared to o...

    Sean P. Gilmore, John K. Henske, Jessica A. Sexton, Kevin V. Solomon, Susanna Seppälä, Justin I Yoo, Lauren M. Huyett, Abe Pressman, James Z. Cogan, Veronika Kivenson, Xuefeng Peng, YerPeng Tan, David L. Valentine and Michelle A. O’Malley

    BMC Genomics 2017 18:639

    Published on: 21 August 2017

  11. Research article

    Comprehensive proteome profiling in Aedes albopictus to decipher Wolbachia-arbovirus interference phenomenon

    Aedes albopictus is a vector of arboviruses that cause severe diseases in humans such as Chikungunya, Dengue and Zika fevers. The vector competence of Ae. albopictus varies depending o...

    Yoann Saucereau, Claire Valiente Moro, Cindy Dieryckx, Jean-William Dupuy, Florence-Hélène Tran, Vincent Girard, Patrick Potier and Patrick Mavingui

    BMC Genomics 2017 18:635

    Published on: 18 August 2017

  12. Research article

    Maternal nutrient restriction in mid-to-late gestation influences fetal mRNA expression in muscle tissues in beef cattle

    Manipulating maternal nutrition during specific periods of gestation can result in re-programming of fetal and post-natal development. In this experiment we investigated how a feed restriction of 85% compared ...

    Francois Paradis, Katie M. Wood, Kendall C. Swanson, Stephen P. Miller, Brian W. McBride and Carolyn Fitzsimmons

    BMC Genomics 2017 18:632

    Published on: 18 August 2017

  13. Research article

    Genomic, transcriptomic, and proteomic approaches towards understanding the molecular mechanisms of salt tolerance in Frankia strains isolated from Casuarina trees

    Soil salinization is a worldwide problem that is intensifying because of the effects of climate change. An effective method for the reclamation of salt-affected soils involves initiating plant succession using...

    Rediet Oshone, Mariama Ngom, Feixia Chu, Samira Mansour, Mame Ourèye Sy, Antony Champion and Louis S. Tisa

    BMC Genomics 2017 18:633

    Published on: 18 August 2017

  14. Research

    AvBD1 nucleotide polymorphisms, peptide antimicrobial activities and microbial colonisation of the broiler chicken gut

    The importance of poultry as a global source of protein underpins the chicken genome and associated SNP data as key tools in selecting and breeding healthy robust birds with improved disease resistance. SNPs a...

    Kevin Cadwell, Sherko S. Niranji, Vanessa L. Armstrong, Catherine A. Mowbray, Richard Bailey, Kellie A Watson and Judith Hall

    BMC Genomics 2017 18:637

    Published on: 18 August 2017

  15. Research article

    Genome-wide analysis of LTR-retrotransposon diversity and its impact on the evolution of the genus Helianthus (L.)

    Genome divergence by mobile elements activity and recombination is a continuous process that plays a key role in the evolution of species. Nevertheless, knowledge on retrotransposon-related variability among s...

    Flavia Mascagni, Tommaso Giordani, Marilena Ceccarelli, Andrea Cavallini and Lucia Natali

    BMC Genomics 2017 18:634

    Published on: 18 August 2017

  16. Research article

    Effects of the vertically transmitted microsporidian Facilispora margolisi and the parasiticide emamectin benzoate on salmon lice (Lepeophtheirus salmonis)

    Microsporidia are highly specialized, parasitic fungi that infect a wide range of eukaryotic hosts from all major taxa. Infections cause a variety of damaging effects on host physiology from increased stress t...

    Jordan D. Poley, Ben J. G. Sutherland, Mark D. Fast, Ben F. Koop and Simon R. M. Jones

    BMC Genomics 2017 18:630

    Published on: 17 August 2017

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