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  1. The large number of genetic linkage maps representing Brassica chromosomes constitute a potential platform for studying crop traits and genome evolution within Brassicaceae. However, the alignment of existing map...

    Authors: Jun Wang, Derek J Lydiate, Isobel AP Parkin, Cyril Falentin, Régine Delourme, Pierre WC Carion and Graham J King
    Citation: BMC Genomics 2011 12:101
    Content type: Research article Published on:

  2. Because of their phylogenetic position and unique characteristics of their biology and life cycle, ferns represent an important lineage for studying the evolution of land plants. Large and complex genomes in f...

    Authors: Joshua P Der, Michael S Barker, Norman J Wickett, Claude W dePamphilis and Paul G Wolf
    Citation: BMC Genomics 2011 12:99
    Content type: Research article Published on:

  3. Many human diseases and phenotypes are related to RNA expression, levels of which are influenced by a wide spectrum of genetic and exposure-related factors. In a large genome-wide study of muscle tissue expres...

    Authors: Clinton C Mason, Robert L Hanson, Vicky Ossowski, Li Bian, Leslie J Baier, Jonathan Krakoff and Clifton Bogardus
    Citation: BMC Genomics 2011 12:98
    Content type: Research article Published on:

  4. Several approaches have been developed for miRNA target prediction, including methods that incorporate expression profiling. However the methods are still in need of improvements due to a high false discovery ...

    Authors: Claus H Bang-Berthelsen, Lykke Pedersen, Tina Fløyel, Peter H Hagedorn, Titus Gylvin and Flemming Pociot
    Citation: BMC Genomics 2011 12:97
    Content type: Research article Published on:

  5. Divergently selected Lean and Fat mouse lines represent unique models for a polygenic form of resistance and susceptibility to obesity development. Previous research on these lines focused mainly on obesity-su...

    Authors: Matjaž Simončič, Tadeja Režen, Peter Juvan, Damjana Rozman, Gregor Fazarinc, Catherine Fievet, Bart Staels and Simon Horvat
    Citation: BMC Genomics 2011 12:96
    Content type: Research article Published on:

  6. Lactation increases energy demands four- to five-fold, leading to a two- to three-fold increase in food consumption, requiring a proportional adjustment in the ability of the lactating dam to absorb nutrients ...

    Authors: Antony Athippozhy, Liping Huang, Clavia Ruth Wooton-Kee, Tianyong Zhao, Paiboon Jungsuwadee, Arnold J Stromberg and Mary Vore
    Citation: BMC Genomics 2011 12:95
    Content type: Research article Published on:

  7. Variation within individual genomes ranges from single nucleotide polymorphisms (SNPs) to kilobase, and even megabase, sized structural variants (SVs), such as deletions, insertions, inversions, and more compl...

    Authors: Hindrik HD Kerstens, Richard PMA Crooijmans, Bert W Dibbits, Addie Vereijken, Ron Okimoto and Martien AM Groenen
    Citation: BMC Genomics 2011 12:94
    Content type: Methodology article Published on:

  8. Clostridium acetobutylicum, a gram-positive and spore-forming anaerobe, is a major strain for the fermentative production of acetone, butanol and ethanol. But a previously isolated hyper-butanol producing strain

    Authors: Shiyuan Hu, Huajun Zheng, Yang Gu, Jingbo Zhao, Weiwen Zhang, Yunliu Yang, Shengyue Wang, Guoping Zhao, Sheng Yang and Weihong Jiang
    Citation: BMC Genomics 2011 12:93
    Content type: Research article Published on:

  9. Genome-wide association studies (GWAS) of common diseases have had a tremendous impact on genetic research over the last five years; the field is now moving from microarray-based technology towards next-genera...

    Authors: Benjamin Lehne, Cathryn M Lewis and Thomas Schlitt
    Citation: BMC Genomics 2011 12:92
    Content type: Research article Published on:

  14. Small non-coding RNAs (sRNAs) are regarded as important regulators in prokaryotes and play essential roles in diverse cellular processes. Xanthomonas oryzae pathovar oryzae (Xoo) is an important plant pathogenic ...

    Authors: Hong Liang, Ying-Tao Zhao, Jie-Qiong Zhang, Xiu-Jie Wang, Rong-Xiang Fang and Yan-Tao Jia
    Citation: BMC Genomics 2011 12:87
    Content type: Research article Published on:

  15. Nocturnal insects such as moths are ideal models to study the molecular bases of olfaction that they use, among examples, for the detection of mating partners and host plants. Knowing how an odour generates a ...

    Authors: Fabrice Legeai, Sébastien Malpel, Nicolas Montagné, Christelle Monsempes, François Cousserans, Christine Merlin, Marie-Christine François, Martine Maïbèche-Coisné, Frédérick Gavory, Julie Poulain and Emmanuelle Jacquin-Joly
    Citation: BMC Genomics 2011 12:86
    Content type: Research article Published on:

  16. Among the Solanaceae plants, the pepper genome is three times larger than that of tomato. Although the gene repertoire and gene order of both species are well conserved, the cause of the genome-size difference is...

    Authors: Minkyu Park, SungHwan Jo, Jin-Kyung Kwon, Jongsun Park, Jong Hwa Ahn, Seungill Kim, Yong-Hwan Lee, Tae-Jin Yang, Cheol-Goo Hur, Byoung-Cheorl Kang, Byung-Dong Kim and Doil Choi
    Citation: BMC Genomics 2011 12:85
    Content type: Research article Published on:

  17. A well-informed choice of genetic locus is central to the efficacy of DNA barcoding. Current DNA barcoding in animals involves the use of the 5' half of the mitochondrial cytochrome oxidase 1 gene (CO1) to diagno...

    Authors: Arong Luo, Aibing Zhang, Simon YW Ho, Weijun Xu, Yanzhou Zhang, Weifeng Shi, Stephen L Cameron and Chaodong Zhu
    Citation: BMC Genomics 2011 12:84
    Content type: Research article Published on:

  18. Zinc Finger Nucleases (ZFNs) have tremendous potential as tools to facilitate genomic modifications, such as precise gene knockouts or gene replacements by homologous recombination. ZFNs can be used to advance...

    Authors: Deepak Reyon, Jessica R Kirkpatrick, Jeffry D Sander, Feng Zhang, Daniel F Voytas, J Keith Joung, Drena Dobbs and Clark R Coffman
    Citation: BMC Genomics 2011 12:83
    Content type: Database Published on:

  19. Hematophagy is a common trait of insect vectors of disease. Extensive genome-wide transcriptional changes occur in mosquitoes after blood meals, and these are related to digestive and reproductive processes, a...

    Authors: Mariangela Bonizzoni, W Augustine Dunn, Corey L Campbell, Ken E Olson, Michelle T Dimon, Osvaldo Marinotti and Anthony A James
    Citation: BMC Genomics 2011 12:82
    Content type: Research article Published on:

  20. Variation at the level of gene expression is abundant in natural populations and is thought to contribute to the adaptive divergence of populations and species. Gene expression also differs considerably betwee...

    Authors: Lena Müller, Stephan Hutter, Rayna Stamboliyska, Sarah S Saminadin-Peter, Wolfgang Stephan and John Parsch
    Citation: BMC Genomics 2011 12:81
    Content type: Research article Published on:

  21. Due to their high level of genotypic and phenotypic variability, Mus spretus strains were introduced in laboratories to investigate the genetic determinism of complex phenotypes including quantitative trait loci....

    Authors: Nisrine Boumahrou, Claudia Bevilacqua, Christian Beauvallet, Guy Miranda, Sanda Andrei, Emmanuelle Rebours, Jean-Jacques Panthier, Sylvain Bellier and Patrice Martin
    Citation: BMC Genomics 2011 12:80
    Content type: Research article Published on:

  23. Segmental duplication and deletion were implicated for a region containing the human immunoglobulin heavy chain variable (IGHV) gene segments, 1.9III/hv3005 (possible allelic variants of IGHV3-30) and hv3019b9...

    Authors: Sreemanta Pramanik, Xiangfeng Cui, Hui-Yun Wang, Nyam-Osor Chimge, Guohong Hu, Li Shen, Richeng Gao and Honghua Li
    Citation: BMC Genomics 2011 12:78
    Content type: Research article Published on:

  24. Genetic markers are pivotal to modern genomics research; however, discovery and genotyping of molecular markers in oat has been hindered by the size and complexity of the genome, and by a scarcity of sequence ...

    Authors: Rebekah E Oliver, Gerard R Lazo, Joseph D Lutz, Marc J Rubenfield, Nicholas A Tinker, Joseph M Anderson, Nicole H Wisniewski Morehead, Dinesh Adhikary, Eric N Jellen, P Jeffrey Maughan, Gina L Brown Guedira, Shiaoman Chao, Aaron D Beattie, Martin L Carson, Howard W Rines, Donald E Obert…
    Citation: BMC Genomics 2011 12:77
    Content type: Research article Published on:

  25. Heat shock response in eukaryotes is transcriptionally regulated by conserved heat shock transcription factors (Hsfs). Hsf genes are represented by a large multigene family in plants and investigation of the H...

    Authors: Yong-Xiang Lin, Hai-Yang Jiang, Zhang-Xin Chu, Xiu-Li Tang, Su-Wen Zhu and Bei-Jiu Cheng
    Citation: BMC Genomics 2011 12:76
    Content type: Research article Published on:

  26. The prevalence of invasive fungal infections (IFIs) has increased steadily worldwide in the last few decades. Particularly, there has been a global rise in the number of infections among immunosuppressed peopl...

    Authors: Ana Karina R Abadio, Erika S Kioshima, Marcus M Teixeira, Natalia F Martins, Bernard Maigret and Maria Sueli S Felipe
    Citation: BMC Genomics 2011 12:75
    Content type: Research article Published on:

  27. Although primarily known as the site of ribosome subunit production, the nucleolus is involved in numerous and diverse cellular processes. Recent large-scale proteomics projects have identified thousands of hu...

    Authors: Michelle S Scott, François-Michel Boisvert, Angus I Lamond and Geoffrey J Barton
    Citation: BMC Genomics 2011 12:74
    Content type: Research article Published on:

  28. Copepods are highly diverse and abundant, resulting in extensive ecological radiation in marine ecosystems. Calanus sinicus dominates continental shelf waters in the northwest Pacific Ocean and plays an important...

    Authors: Wang Minxiao, Sun Song, Li Chaolun and Shen Xin
    Citation: BMC Genomics 2011 12:73
    Content type: Research article Published on:

  31. M. catarrhalis is a gram-negative, gamma-proteobacterium and an opportunistic human pathogen associated with otitis media (OM) and exacerbations of chronic obstructive pulmonary disease (COPD). With direct and in...

    Authors: Jeremiah J Davie, Josh Earl, Stefan PW de Vries, Azad Ahmed, Fen Z Hu, Hester J Bootsma, Kim Stol, Peter WM Hermans, Robert M Wadowsky, Garth D Ehrlich, John P Hays and Anthony A Campagnari
    Citation: BMC Genomics 2011 12:70
    Content type: Research article Published on:

  32. Sessile bivalves of the genus Mytilus are suspension feeders relatively tolerant to a wide range of environmental changes, used as sentinels in ecotoxicological investigations and marketed worldwide as seafood. M...

    Authors: Paola Venier, Laura Varotto, Umberto Rosani, Caterina Millino, Barbara Celegato, Filippo Bernante, Gerolamo Lanfranchi, Beatriz Novoa, Philippe Roch, Antonio Figueras and Alberto Pallavicini
    Citation: BMC Genomics 2011 12:69
    Content type: Research article Published on:

  33. Eukaryotic translation initiation factor 4G (eIF4G) is thought to influence the translational efficiencies of cellular mRNAs by its roles in forming an eIF4F-mRNA-PABP mRNP that is competent for attachment of ...

    Authors: Eun-Hee Park, Fan Zhang, Jonas Warringer, Per Sunnerhagen and Alan G Hinnebusch
    Citation: BMC Genomics 2011 12:68
    Content type: Research article Published on:

  34. Chinese hamster ovary (CHO) cells are among the most widely used hosts for therapeutic protein production. Yet few genomic resources are available to aid in engineering high-producing cell lines.

    Authors: Stephanie Hammond, Jeffrey C Swanberg, Mihailo Kaplarevic and Kelvin H Lee
    Citation: BMC Genomics 2011 12:67
    Content type: Research article Published on:

  35. Methods for gene-class testing, such as Gene Set Enrichment Analysis (GSEA), incorporate biological knowledge into the analysis and interpretation of microarray data by comparing gene expression patterns to pa...

    Authors: Michael A Thomas, Luobin Yang, Barbara J Carter and Rebecca D Klaper
    Citation: BMC Genomics 2011 12:66
    Content type: Research article Published on:

  36. Scanning the genome with high density SNP markers has become a standard approach for identifying regions of the genome showing substantial between-population genetic differentiation, and thus evidence of diver...

    Authors: Pamela Wiener, Mohammad A Edriss, John L Williams, David Waddington, Andrew Law, John A Woolliams and Beatriz Gutiérrez-Gil
    Citation: BMC Genomics 2011 12:65
    Content type: Research article Published on:

  38. After several years in the juvenile phase, trees undergo flowering transition to become mature (florally competent) trees. This transition depends on the balanced expression of a complex network of genes that ...

    Authors: Jin-Zhi Zhang, Xiao-Yan Ai, Lei-Ming Sun, Dong-Liang Zhang, Wen-Wu Guo, Xiu-Xin Deng and Chun-Gen Hu
    Citation: BMC Genomics 2011 12:63
    Content type: Research article Published on:

  39. Heliconius butterflies are an excellent system for studies of adaptive convergent and divergent phenotypic traits. Wing colour patterns are used as signals to both predators and potential mates and are inherited ...

    Authors: Alison K Surridge, Sara Lopez-Gomollon, Simon Moxon, Luana S Maroja, Tina Rathjen, Nicola J Nadeau, Tamas Dalmay and Chris D Jiggins
    Citation: BMC Genomics 2011 12:62
    Content type: Research article Published on:

  40. Most evolutionary developmental biology ("evo-devo") studies of emerging model organisms focus on small numbers of candidate genes cloned individually using degenerate PCR. However, newly available sequencing ...

    Authors: Ben Ewen-Campen, Nathan Shaner, Kristen A Panfilio, Yuichiro Suzuki, Siegfried Roth and Cassandra G Extavour
    Citation: BMC Genomics 2011 12:61
    Content type: Research article Published on:

  42. Many plants have large and complex genomes with an abundance of repeated sequences. Many plants are also polyploid. Both of these attributes typify the genome architecture in the tribe Triticeae, whose members...

    Authors: Frank M You, Naxin Huo, Karin R Deal, Yong Q Gu, Ming-Cheng Luo, Patrick E McGuire, Jan Dvorak and Olin D Anderson
    Citation: BMC Genomics 2011 12:59
    Content type: Methodology article Published on:

  44. The bi-directional communication between the oocyte and its companion cumulus cells (CCs) is crucial for development and functions of both cell types. Transcripts that are exclusively expressed either in oocyt...

    Authors: A Regassa, F Rings, M Hoelker, U Cinar, E Tholen, C Looft, K Schellander and D Tesfaye
    Citation: BMC Genomics 2011 12:57
    Content type: Research article Published on:

  45. The whitefly Trialeurodes vaporariorum is an economically important crop pest in temperate regions that has developed resistance to most classes of insecticides. However, the molecular mechanisms underlying resis...

    Authors: Nikos Karatolos, Yannick Pauchet, Paul Wilkinson, Ritika Chauhan, Ian Denholm, Kevin Gorman, David R Nelson, Chris Bass, Richard H ffrench-Constant and Martin S Williamson
    Citation: BMC Genomics 2011 12:56
    Content type: Research article Published on:

  46. Searching for associations between genetic variants and complex diseases has been a very active area of research for over two decades. More than 51,000 potential associations have been studied and published, a...

    Authors: Urko M Marigorta, Oscar Lao, Ferran Casals, Francesc Calafell, Carlos Morcillo-Suárez, Rui Faria, Elena Bosch, François Serra, Jaume Bertranpetit, Hernán Dopazo and Arcadi Navarro
    Citation: BMC Genomics 2011 12:55
    Content type: Research article Published on:

  47. Cancer is commonly associated with widespread disruption of DNA methylation, chromatin modification and miRNA expression. In this study, we established a robust discovery pipeline to identify epigenetically de...

    Authors: Toby Hulf, Tennille Sibbritt, Erik D Wiklund, Saul Bert, Dario Strbenac, Aaron L Statham, Mark D Robinson and Susan J Clark
    Citation: BMC Genomics 2011 12:54
    Content type: Methodology article Published on:

  48. Single nucleotide polymorphisms (SNPs) have become the marker of choice for genome-wide association studies. In order to provide the best genome coverage for the analysis of performance and production traits, ...

    Authors: Shikai Liu, Zunchun Zhou, Jianguo Lu, Fanyue Sun, Shaolin Wang, Hong Liu, Yanliang Jiang, Huseyin Kucuktas, Ludmilla Kaltenboeck, Eric Peatman and Zhanjiang Liu
    Citation: BMC Genomics 2011 12:53
    Content type: Research article Published on:

  49. The toxigenic fungal plant pathogen Fusarium graminearum compromises wheat production worldwide. Azole fungicides play a prominent role in controlling this pathogen. Sequencing of its genome stimulated the develo...

    Authors: Rayko Becher, Fabian Weihmann, Holger B Deising and Stefan GR Wirsel
    Citation: BMC Genomics 2011 12:52
    Content type: Research article Published on:

  50. High-throughput screening using RNAi is a powerful gene discovery method but is often complicated by false positive and false negative results. Whereas false positive results associated with RNAi reagents has ...

    Authors: Matthew Booker, Anastasia A Samsonova, Young Kwon, Ian Flockhart, Stephanie E Mohr and Norbert Perrimon
    Citation: BMC Genomics 2011 12:50
    Content type: Research article Published on:

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