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  1. Scab, caused by the fungus Venturia inaequalis, is one of the most important diseases of cultivated apple. While a few scab resistance genes (R genes) governing qualitative resistance have been isolated and chara...

    Authors: Héloïse Bastiaanse, Yordan Muhovski, Olivier Parisi, Roberta Paris, Dominique Mingeot and Marc Lateur
    Citation: BMC Genomics 2014 15:1043
    Content type: Research article Published on:

  3. Dirofilaria immitis, or canine heartworm, is a filarial nematode parasite that infects dogs and other mammals worldwide. Current disease control relies on regular administration of anthelmintic preventives, howev...

    Authors: Ashley N Luck, Christopher C Evans, Molly D Riggs, Jeremy M Foster, Andrew R Moorhead, Barton E Slatko and Michelle L Michalski
    Citation: BMC Genomics 2014 15:1041
    Content type: Research article Published on:

  5. Mutations that alter chromosomal structure play critical roles in evolution and disease, including in the origin of new lifestyles and pathogenic traits in microbes. Large-scale rearrangements in genomes are o...

    Authors: Jeffrey E Barrick, Geoffrey Colburn, Daniel E Deatherage, Charles C Traverse, Matthew D Strand, Jordan J Borges, David B Knoester, Aaron Reba and Austin G Meyer
    Citation: BMC Genomics 2014 15:1039
    Content type: Software Published on:

  6. Only a small fraction of the mosquito species of the genus Anopheles are able to transmit malaria, one of the biggest killer diseases of poverty, which is mostly prevalent in the tropics. This diversity has ge...

    Authors: Vicky Dritsou, Elena Deligianni, Emmanuel Dialynas, James Allen, Nikos Poulakakis, Christos Louis, Dan Lawson and Pantelis Topalis
    Citation: BMC Genomics 2014 15:1038
    Content type: Research article Published on:

  7. Brassica napus (AACC) is self-compatible, although its ancestor species Brassica rapa (AA) and Brassica oleracea (CC) are self-incompatible. Most B.napus accessions have dominant self-compatibility (SC) resulting...

    Authors: Wen Zhai, Jianfeng Zhang, Yong Yang, Chaozhi Ma, Zhiquan Liu, Changbin Gao, Guilong Zhou, Jinxing Tu, Jinxiong Shen and Tingdong Fu
    Citation: BMC Genomics 2014 15:1037
    Content type: Research article Published on:

  8. DNA methylation is a heritable mechanism that acts in response to environmental changes, lifestyle and diseases by influencing gene expression in eukaryotes. Epigenetic studies of wild organisms are mandatory ...

    Authors: Alexandra Weyrich, Tino Schüllermann, Felix Heeger, Marie Jeschek, Camila J Mazzoni, Wei Chen, Kathrin Schumann and Joerns Fickel
    Citation: BMC Genomics 2014 15:1036
    Content type: Methodology article Published on:

  9. In metazoans, opsins are photosensitive proteins involved in both vision and non-visual photoreception. Echinoderms have no well-defined eyes but several opsin genes were found in the purple sea urchin (Strongylo...

    Authors: Jérôme Delroisse, Esther Ullrich-Lüter, Olga Ortega-Martinez, Sam Dupont, Maria-Ina Arnone, Jérôme Mallefet and Patrick Flammang
    Citation: BMC Genomics 2014 15:1035
    Content type: Research article Published on:

  10. Maternal nutrition during different stages of pregnancy can induce significant changes in the structure, physiology, and metabolism of the offspring. These changes could have important implications on food ani...

    Authors: Francisco Peñagaricano, Xin Wang, Guilherme JM Rosa, Amy E Radunz and Hasan Khatib
    Citation: BMC Genomics 2014 15:1034
    Content type: Research article Published on:

  11. Although Daphnia is increasingly recognized as a model for ecological genomics and biomedical research, there is, as of yet, no high-resolution genetic map for the genus. Such a map would provide an important too...

    Authors: Jarkko Routtu, Matthew D Hall, Brian Albere, Christian Beisel, R Daniel Bergeron, Anurag Chaturvedi, Jeong-Hyeon Choi, John Colbourne, Luc De Meester, Melissa T Stephens, Claus-Peter Stelzer, Eleanne Solorzano, W Kelley Thomas, Michael E Pfrender and Dieter Ebert
    Citation: BMC Genomics 2014 15:1033
    Content type: Research article Published on:

  12. Transposable elements form a significant proportion of eukaryotic genomes. Recently, Lexa et al. (Nucleic Acids Res 42:968-978, 2014) reported that plant long terminal repeat (LTR) retrotransposons often conta...

    Authors: Matej Lexa, Pavlina Steflova, Tomas Martinek, Michaela Vorlickova, Boris Vyskot and Eduard Kejnovsky
    Citation: BMC Genomics 2014 15:1032
    Content type: Research article Published on:

  13. Ecological studies routinely show genotype-genotype interactions between insects and their parasites. The mechanisms behind these interactions are not clearly understood. Using the bumblebee Bombus terrestris/try...

    Authors: Carolyn E Riddell, Juan D Lobaton Garces, Sally Adams, Seth M Barribeau, David Twell and Eamonn B Mallon
    Citation: BMC Genomics 2014 15:1031
    Content type: Research article Published on:

  14. Seedless grapes are greatly appreciated for fresh and dry fruit consumption. Parthenocarpy and stenospermocarpy have been described as the main phenomena responsible for seedlessness in Vitis vinifera. However, t...

    Authors: Chinedu Charles Nwafor, Ivana Gribaudo, Anna Schneider, Ron Wehrens, Maria Stella Grando and Laura Costantini
    Citation: BMC Genomics 2014 15:1030
    Content type: Research article Published on:

  15. Wheat (Triticum aestivum L.) is an economically important grain crop. Two-dimensional gel-based approaches are limited by the low identification rate of proteins and lack of accurate protein quantitation. The rec...

    Authors: Chaoying Ma, Jianwen Zhou, Guanxing Chen, Yanwei Bian, Dongwen Lv, Xiaohui Li, Zhimin Wang and Yueming Yan
    Citation: BMC Genomics 2014 15:1029
    Content type: Research article Published on:

  16. Currently, in the era of post-genomics, immunology is facing a challenging problem to translate mutant phenotypes into gene functions based on high-throughput data, while taking into account the classification...

    Authors: Masahiro Ono, Reiko J Tanaka and Manabu Kano
    Citation: BMC Genomics 2014 15:1028
    Content type: Methodology article Published on:

  17. The genetic diversity observed among bacteriophages remains a major obstacle for the identification of homologs and the comparison of their functional modules. In the structural module, although several classe...

    Authors: Anne Lopes, Paulo Tavares, Marie-Agnès Petit, Raphaël Guérois and Sophie Zinn-Justin
    Citation: BMC Genomics 2014 15:1027
    Content type: Software Published on:

  18. Rice (Oryza sativa. L) is more sensitive to drought stress than other cereals, and large genotypic variation in drought tolerance (DT) exists within the cultivated rice gene pool and its wild relatives. Selective...

    Authors: Liyu Huang, Fan Zhang, Fan Zhang, Wensheng Wang, Yongli Zhou, Binying Fu and Zhikang Li
    Citation: BMC Genomics 2014 15:1026
    Content type: Research article Published on:

  19. Coix, Sorghum and Zea are closely related plant genera in the subtribe Maydeae. Coix comprises 9–11 species with different ploidy levels (2n = 10, 20, 30, and 40). The exclusively cultivated C. lacryma-jobi L. (2...

    Authors: Zexi Cai, Huijun Liu, Qunyan He, Mingwei Pu, Jian Chen, Jinsheng Lai, Xuexian Li and Weiwei Jin
    Citation: BMC Genomics 2014 15:1025
    Content type: Research article Published on:

  20. Eukaryotic cellular machineries are intricately regulated by several molecular mechanisms involving transcriptional control, post-translational control and post-translational modifications of proteins (PTMs). ...

    Authors: Rajan Pandey, Asif Mohmmed, Christine Pierrot, Jamal Khalife, Pawan Malhotra and Dinesh Gupta
    Citation: BMC Genomics 2014 15:1024
    Content type: Research article Published on:

  21. Grain aphid (Sitobion avenae F) and pea aphid (Acyrthosiphon pisum) are two agriculturally important pest species, which cause significant yield losses to crop plants each year by inflicting damage both through t...

    Authors: Dahai Wang, Qi Liu, Huw D Jones, Toby Bruce and Lanqin Xia
    Citation: BMC Genomics 2014 15:1023
    Content type: Research article Published on:

  23. The admixed South African Coloured population is ideally suited to the discovery of tuberculosis susceptibility genetic variants and their probable ethnic origins, but previous attempts at finding such variant...

    Authors: Michelle Daya, Lize van der Merwe, Christopher R Gignoux, Paul D van Helden, Marlo Möller and Eileen G Hoal
    Citation: BMC Genomics 2014 15:1021
    Content type: Research article Published on:

  24. Acinetobacter baumannii is a significant hospital pathogen, particularly due to the dissemination of highly multidrug resistant isolates. Genome data have revealed that A. baumannii is highly genetically diverse,...

    Authors: Bart A Eijkelkamp, Uwe H Stroeher, Karl A Hassan, Ian T Paulsen and Melissa H Brown
    Citation: BMC Genomics 2014 15:1020
    Content type: Research article Published on:

  25. Our prior characterization of RasGrf1 deficient mice uncovered significant defects in pancreatic islet count and size as well as beta cell development and signaling function, raising question about the mechani...

    Authors: Lara Manyes, Monica Arribas, Carmela Gomez, Nuria Calzada, Alberto Fernandez-Medarde and Eugenio Santos
    Citation: BMC Genomics 2014 15:1019
    Content type: Research article Published on:

  26. The elevated expression of enzymes with insecticide metabolism activity can lead to high levels of insecticide resistance in the malaria vector, Anopheles gambiae. In this study, adult female mosquitoes from an i...

    Authors: Victoria A Ingham, Christopher M Jones, Patricia Pignatelli, Vasileia Balabanidou, John Vontas, Simon C Wagstaff, Jonathan D Moore and Hilary Ranson
    Citation: BMC Genomics 2014 15:1018
    Content type: Research article Published on:

  27. Genetic variation in the human population is a key determinant of influenza disease severity. A single nucleotide polymorphism in the antiviral gene IFITM3 was linked to outcomes during the 2009 H1N1 pandemic. To...

    Authors: Adrianus CM Boon, Robert W Williams, David S Sinasac and Richard J Webby
    Citation: BMC Genomics 2014 15:1017
    Content type: Research article Published on:

  28. Genome-wide saturation mutagenesis and subsequent phenotype-driven screening has been central to a comprehensive understanding of complex biological processes in classical model organisms such as flies, nemato...

    Authors: Masahiro Tokunaga, Chikara Kokubu, Yusuke Maeda, Jun Sese, Kyoji Horie, Nakaba Sugimoto, Taroh Kinoshita, Kosuke Yusa and Junji Takeda
    Citation: BMC Genomics 2014 15:1016
    Content type: Research article Published on:

  30. Sphingobium spp. are efficient degraders of a wide range of chlorinated and aromatic hydrocarbons. In particular, strains which harbour the lin pathway genes mediating the degradation of hexachlorocyclohexane (HC...

    Authors: Helianthous Verma, Roshan Kumar, Phoebe Oldach, Naseer Sangwan, Jitendra P Khurana, Jack A Gilbert and Rup Lal
    Citation: BMC Genomics 2014 15:1014
    Content type: Research article Published on:

  31. Structural mutations (SMs) play a major role in cancer development. In some cancers, such as breast and ovarian, DNA double-strand breaks (DSBs) occur more frequently in transcribed regions, while in other can...

    Authors: Krzysztof R Grzeda, Beryl Royer-Bertrand, Koichiro Inaki, Hyunsoo Kim, Axel M Hillmer, Edison T Liu and Jeffrey H Chuang
    Citation: BMC Genomics 2014 15:1013
    Content type: Research article Published on:

  32. Lactation is a key aspect of mammalian evolution for adaptation of various reproductive strategies along different mammalian lineages. Marsupials, such as tammar wallaby, adopted a short gestation and a relati...

    Authors: Vengamanaidu Modepalli, Amit Kumar, Lyn A Hinds, Julie A Sharp, Kevin R Nicholas and Christophe Lefevre
    Citation: BMC Genomics 2014 15:1012
    Content type: Research article Published on:

  33. Chemical mutagenesis screens are useful to identify mutants involved in biological processes of interest. Identifying the mutation from such screens, however, often fails when using methodologies involving tra...

    Authors: Jin Woo Bok, Philipp Wiemann, Graeme S Garvey, Fang Yun Lim, Brian Haas, Jennifer Wortman and Nancy P Keller
    Citation: BMC Genomics 2014 15:1011
    Content type: Research article Published on:

  34. MicroRNAs are a class of short non-coding RNAs derived from either cellular or viral transcripts that act post-transcriptionally to regulate mRNA stability and translation. In recent days, increasing numbers o...

    Authors: Jyotirmoy Das, Soumita Podder and Tapash Chandra Ghosh
    Citation: BMC Genomics 2014 15:1010
    Content type: Research article Published on:

  35. High temperature affects organism growth and metabolic activity. Heat shock transcription factors (Hsfs) are key regulators in heat shock response in eukaryotes and prokaryotes. Under high temperature conditio...

    Authors: Pan-Song Li, Tai-Fei Yu, Guan-Hua He, Ming Chen, Yong-Bin Zhou, Shou-Cheng Chai, Zhao-Shi Xu and You-Zhi Ma
    Citation: BMC Genomics 2014 15:1009
    Content type: Research article Published on:

  36. Microarrays have revolutionized breast cancer (BC) research by enabling studies of gene expression on a transcriptome-wide scale. Recently, RNA-Sequencing (RNA-Seq) has emerged as an alternative for precise re...

    Authors: Debora Fumagalli, Alexis Blanchet-Cohen, David Brown, Christine Desmedt, David Gacquer, Stefan Michiels, Françoise Rothé, Samira Majjaj, Roberto Salgado, Denis Larsimont, Michail Ignatiadis, Marion Maetens, Martine Piccart, Vincent Detours, Christos Sotiriou and Benjamin Haibe-Kains
    Citation: BMC Genomics 2014 15:1008
    Content type: Research article Published on:

  37. Typhoid fever is an infectious disease of global importance that is caused by Salmonella enterica subsp. enterica serovar Typhi (S. Typhi). This disease causes an estimated 200,000 deaths per year and remains a s...

    Authors: Kien-Pong Yap, Han Ming Gan, Cindy Shuan Ju Teh, Lay Ching Chai and Kwai Lin Thong
    Citation: BMC Genomics 2014 15:1007
    Content type: Research article Published on:

  38. Cassava mosaic disease is caused by several distinct geminivirus species, including South African cassava mosaic virus-[South Africa:99] (SACMV). To date, there is limited gene regulation information on viral str...

    Authors: Farhahna Allie, Erica J Pierce, Michal J Okoniewski and Chrissie Rey
    Citation: BMC Genomics 2014 15:1006
    Content type: Research article Published on:

  39. To identify the key elements controlling grain production in maize, it is essential to have an integrated view of the responses to alterations in the main steps of nitrogen assimilation by modification of gene...

    Authors: Nardjis Amiour, Sandrine Imbaud, Gilles Clément, Nicolas Agier, Michel Zivy, Benoît Valot, Thierry Balliau, Isabelle Quilleré, Thérèse Tercé-Laforgue, Céline Dargel-Graffin and Bertrand Hirel
    Citation: BMC Genomics 2014 15:1005
    Content type: Research article Published on:

  40. The identification of genetic markers associated with complex traits that are expensive to record such as feed intake or feed efficiency would allow these traits to be included in selection programs. To identi...

    Authors: Mahdi Saatchi, Jonathan E Beever, Jared E Decker, Dan B Faulkner, Harvey C Freetly, Stephanie L Hansen, Helen Yampara-Iquise, Kristen A Johnson, Stephen D Kachman, Monty S Kerley, JaeWoo Kim, Daniel D Loy, Elisa Marques, Holly L Neibergs, E John Pollak, Robert D Schnabel…
    Citation: BMC Genomics 2014 15:1004
    Content type: Research article Published on:

  42. CRISPR-Cas9 is a revolutionary genome editing technique that allows for efficient and directed alterations of the eukaryotic genome. This relatively new technology has already been used in a large number of ‘l...

    Authors: Charles C Bell, Graham W Magor, Kevin R Gillinder and Andrew C Perkins
    Citation: BMC Genomics 2014 15:1002
    Content type: Methodology article Published on:

  43. Major changes in gene expression occur in the fetal brain to modulate the function of this organ postnatally. Thus, factors can alter the genomics of the fetal brain, predisposing to neurological disorders lat...

    Authors: Maria B Rabaglino, Maureen Keller-Wood and Charles E Wood
    Citation: BMC Genomics 2014 15:1001
    Content type: Research article Published on:

  44. One of the most common goals of hierarchical clustering is finding those branches of a tree that form quantifiably distinct data subtypes. Achieving this goal in a statistically meaningful way requires (a) a m...

    Authors: Guoli Sun and Alexander Krasnitz
    Citation: BMC Genomics 2014 15:1000
    Content type: Methodology article Published on:

  45. The pea aphid Acyrthosiphon pisum has two modes of reproduction: parthenogenetic during the spring and summer and sexual in autumn. This ability to alternate between reproductive modes and the emergence of clonal...

    Authors: Victoria Reingold, Neta Luria, Alain Robichon and Aviv Dombrovsky
    Citation: BMC Genomics 2014 15:999
    Content type: Research article Published on:

  47. DNA methylation (DNAm) levels can be used to predict the chronological age of tissues; however, the characteristics of DNAm age signatures in normal and cancer tissues are not well studied using multiple studies.

    Authors: Jihyun Kim, Kyung Kim, Hyosil Kim, Gyesoon Yoon and KiYoung Lee
    Citation: BMC Genomics 2014 15:997
    Content type: Research article Published on:

  48. Sugarcane smut can cause losses in cane yield and sugar content that range from 30% to total crop failure. Losses tend to increase with the passage of years. Sporisorium scitamineum is the fungus that causes suga...

    Authors: Youxiong Que, Liping Xu, Qibin Wu, Yongfeng Liu, Hui Ling, Yanhong Liu, Yuye Zhang, Jinlong Guo, Yachun Su, Jiebo Chen, Shanshan Wang and Chengguang Zhang
    Citation: BMC Genomics 2014 15:996
    Content type: Research article Published on:

    The Erratum to this article has been published in BMC Genomics 2015 16:244

  49. Wild barley is adapted to highly diverse environments throughout its geographical distribution range. Transcriptome sequencing of differentially adapted wild barley ecotypes from contrasting environments contr...

    Authors: Girma Bedada, Anna Westerbergh, Thomas Müller, Eyal Galkin, Eyal Bdolach, Menachem Moshelion, Eyal Fridman and Karl J Schmid
    Citation: BMC Genomics 2014 15:995
    Content type: Research article Published on:

  50. The TRA/TRD locus contains the genes for V(D)J somatic rearrangement of TRA and TRD chains expressed by αβ and γδ T cells respectively. Previous studies have demonstrated that the bovine TRA/TRD locus contains...

    Authors: Timothy K Connelley, Kathryn Degnan, Cassandra W Longhi and W Ivan Morrison
    Citation: BMC Genomics 2014 15:994
    Content type: Research article Published on:

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