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  1. Wheat is one of the most important cereal crops for human beings, with seeds being the tissue of highly economic value. Various morphogenetic and metabolic processes are exclusively associated with seed matura...

    Authors: Xinglu Yang, Hongliang Xu, Wenhui Li, Le Li, Jinyue Sun, Yaxuan Li, Yueming Yan and Yingkao Hu
    Citation: BMC Genomics 2011 12:513
    Content type: Methodology article Published on:

  2. Several mutations were present in the genome of Streptococcus pneumoniae linezolid-resistant strains but the role of several of these mutations had not been experimentally tested. To analyze the role of these mut...

    Authors: Dewan S Billal, Jie Feng, Philippe Leprohon, Danielle Légaré and Marc Ouellette
    Citation: BMC Genomics 2011 12:512
    Content type: Research article Published on:

  3. The availability of fully sequenced genomes and the implementation of transcriptome technologies have increased the studies investigating the expression profiles for a variety of tissues, conditions, and speci...

    Authors: Stilianos Arhondakis, Kimon Frousios, Costas S Iliopoulos, Solon P Pissis, German Tischler and Sophia Kossida
    Citation: BMC Genomics 2011 12:511
    Content type: Research article Published on:

  4. RNAi technology by feeding of E. coli containing dsRNA in C. elegans has significantly contributed to further our understanding of many different fields, including genetics, molecular biology, developmental biolo...

    Authors: Mark Elvin, Laurens B Snoek, Martin Frejno, Ulrike Klemstein, Jan E Kammenga and Gino B Poulin
    Citation: BMC Genomics 2011 12:510
    Content type: Methodology article Published on:

  5. Although an adverse early-life environment has been linked to an increased risk of developing the metabolic syndrome, the molecular mechanisms underlying altered disease susceptibility as well as their relevan...

    Authors: Bright Starling Emerald, Keefe Chng, Shinya Masuda, Deborah M Sloboda, Mark H Vickers, Ravi Kambadur and Peter D Gluckman
    Citation: BMC Genomics 2011 12:509
    Content type: Research article Published on:

  6. Classical genetic studies provide strong evidence for heritable contributions to susceptibility to developing dependence on addictive substances. Candidate gene and genome-wide association studies (GWAS) have ...

    Authors: Chuan-Yun Li, Wei-Zhen Zhou, Ping-Wu Zhang, Catherine Johnson, Liping Wei and George R Uhl
    Citation: BMC Genomics 2011 12:508
    Content type: Research article Published on:

  7. The growth of high-throughput technologies such as microarrays and next generation sequencing has been accompanied by active research in data analysis methodology, producing new analysis methods at a rapid pac...

    Authors: M Aleksi Kallio, Jarno T Tuimala, Taavi Hupponen, Petri Klemelä, Massimiliano Gentile, Ilari Scheinin, Mikko Koski, Janne Käki and Eija I Korpelainen
    Citation: BMC Genomics 2011 12:507
    Content type: Software Published on:

  8. Several studies have shown that genomes can be studied via a multifractal formalism. Recently, we used a multifractal approach to study the genetic information content of the Caenorhabditis elegans genome. Here w...

    Authors: Pedro A Moreno, Patricia E Vélez, Ember Martínez, Luis E Garreta, Néstor Díaz, Siler Amador, Irene Tischer, José M Gutiérrez, Ashwinikumar K Naik, Fabián Tobar and Felipe García
    Citation: BMC Genomics 2011 12:506
    Content type: Research article Published on:

  9. Approximately half of all human genes use alternative transcription start sites (TSSs) to control mRNA levels and broaden the transcriptional output in healthy tissues. Aberrant expression patterns promoting c...

    Authors: Kasper Thorsen, Troels Schepeler, Bodil Øster, Mads H Rasmussen, Søren Vang, Kai Wang, Kristian Q Hansen, Philippe Lamy, Jakob Skou Pedersen, Asger Eller, Francisco Mansilla, Kirsti Laurila, Carsten Wiuf, Søren Laurberg, Lars Dyrskjøt, Torben F Ørntoft…
    Citation: BMC Genomics 2011 12:505
    Content type: Research article Published on:

  10. Gene variants within regulatory regions are thought to be major contributors of the variation of complex traits/diseases. Genome wide association studies (GWAS), have identified scores of genetic variants that...

    Authors: Kris Richardson, Chao-Qiang Lai, Laurence D Parnell, Yu-Chi Lee and Jose M Ordovas
    Citation: BMC Genomics 2011 12:504
    Content type: Research article Published on:

  11. Albugo candida is a biotrophic oomycete that parasitizes various species of Brassicaceae, causing a disease (white blister rust) with remarkable convergence in behaviour to unrelated rusts of basidiomycete fungi.

    Authors: Matthew G Links, Eric Holub, Rays HY Jiang, Andrew G Sharpe, Dwayne Hegedus, Elena Beynon, Dean Sillito, Wayne E Clarke, Shihomi Uzuhashi and Mohammad H Borhan
    Citation: BMC Genomics 2011 12:503
    Content type: Research article Published on:

  12. Small molecule ligands often have multiple effects on the transcriptional program of a cell: they trigger a receptor specific response and additional, indirect responses ("side effects"). Distinguishing those ...

    Authors: Jacob J Michaelson, Saskia Trump, Susanne Rudzok, Carolin Gräbsch, Danielle J Madureira, Franziska Dautel, Juliane Mai, Sabine Attinger, Kristin Schirmer, Martin von Bergen, Irina Lehmann and Andreas Beyer
    Citation: BMC Genomics 2011 12:502
    Content type: Research article Published on:

  13. Marek's disease (MD) is a lymphoproliferative disease in chickens caused by Marek's disease virus (MDV) and characterized by T cell lymphoma and infiltration of lymphoid cells into various organs such as liver...

    Authors: Ying Yu, Juan Luo, Apratim Mitra, Shuang Chang, Fei Tian, Huanmin Zhang, Ping Yuan, Huaijun Zhou and Jiuzhou Song
    Citation: BMC Genomics 2011 12:501
    Content type: Research article Published on:

  14. Apomixis or asexual seed formation represents a potentially important agronomic trait whose introduction into crop plants could be an effective way to fix and perpetuate a desirable genotype through successive...

    Authors: Samuel Amiteye, José M Corral, Heiko Vogel and Timothy F Sharbel
    Citation: BMC Genomics 2011 12:500
    Content type: Research article Published on:

  16. Downy mildew in sunflowers (Helianthus annuus L.) is caused by the oomycete Plasmopara halstedii (Farl.) Berlese et de Toni. Despite efforts by the international community to breed mildew-resistant varieties, dow...

    Authors: Falah As-sadi, Sébastien Carrere, Quentin Gascuel, Thibaut Hourlier, David Rengel, Marie-Christine Le Paslier, Amandine Bordat, Marie-Claude Boniface, Dominique Brunel, Jérôme Gouzy, Laurence Godiard and Patrick Vincourt
    Citation: BMC Genomics 2011 12:498
    Content type: Research article Published on:

  17. Angiosperm mitochondrial genomes are more complex than those of other organisms. Analyses of the mitochondrial genome sequences of at least 11 angiosperm species have showed several common properties; these ca...

    Authors: Shengxin Chang, Tiantian Yang, Tongqing Du, Yongjuan Huang, Jianmei Chen, Jiyong Yan, Jianbo He and Rongzhan Guan
    Citation: BMC Genomics 2011 12:497
    Content type: Research article Published on:

  18. Malnutrition is a major factor affecting animal health, resistance to disease and survival. In honey bees (Apis mellifera), pollen, which is the main dietary source of proteins, amino acids and lipids, is essenti...

    Authors: Cédric Alaux, Christelle Dantec, Hughes Parrinello and Yves Le Conte
    Citation: BMC Genomics 2011 12:496
    Content type: Research article Published on:

  19. Although nearly half of the human genome is comprised of repetitive sequences, the expression profile of these elements remains largely uncharacterized. Recently developed high throughput sequencing technologi...

    Authors: Svitlana Tyekucheva, Robert H Yolken, W Richard McCombie, Jennifer Parla, Melissa Kramer, Sarah J Wheelan and Sarven Sabunciyan
    Citation: BMC Genomics 2011 12:495
    Content type: Research article Published on:

  20. The transcriptome and its regulation bridge the genome and the phenome. Recent RNA-seq studies unveiled complex transcriptomes with previously unknown transcripts and functions. To investigate the characterist...

    Authors: Yazhou Sun, Yaqiong Wang, Yi Hu, Gong Chen and Hong Ma
    Citation: BMC Genomics 2011 12:494
    Content type: Research article Published on:

  21. Studies of Mycobacterium bovis BCG strains used in different countries and vaccination programs show clear variations in the genomes and immune protective properties of BCG strains. The aim of this study was to c...

    Authors: Patricia Orduña, Miguel A Cevallos, Samuel Ponce de León, Adriana Arvizu, Ismael L Hernández-González, Guillermo Mendoza-Hernández and Yolanda López-Vidal
    Citation: BMC Genomics 2011 12:493
    Content type: Research article Published on:

  22. Increasing the nutrient concentration of wheat grains is important to ameliorate nutritional deficiencies in many parts of the world. Proteins and nutrients in the wheat grain are largely derived from the remo...

    Authors: Dario Cantu, Stephen P Pearce, Assaf Distelfeld, Michael W Christiansen, Cristobal Uauy, Eduard Akhunov, Tzion Fahima and Jorge Dubcovsky
    Citation: BMC Genomics 2011 12:492
    Content type: Research article Published on:

  23. The ATP-binding cassette (ABC) transporter superfamily is the largest transporter gene family responsible for transporting specific molecules across lipid membranes in all living organisms. In insects, ABC tra...

    Authors: Shumin Liu, Shun Zhou, Ling Tian, Enen Guo, Yunxia Luan, Jianzhen Zhang and Sheng Li
    Citation: BMC Genomics 2011 12:491
    Content type: Research article Published on:

  24. Fish scales are an important reservoir of calcium and phosphorus and together with the skin function as an integrated barrier against environmental changes and external aggressors. Histological studies have re...

    Authors: Florbela A Vieira, Silvia F Gregório, Serena Ferraresso, Michael AS Thorne, Rita Costa, Massimo Milan, Luca Bargelloni, Melody S Clark, Adelino VM Canario and Deborah M Power
    Citation: BMC Genomics 2011 12:490
    Content type: Research article Published on:

  25. In eukaryotic organisms, DNA is packaged into chromatin structure, where most of DNA is wrapped into nucleosomes. DNA compaction and nucleosome positioning have clear functional implications, since they modula...

    Authors: Özgen Deniz, Oscar Flores, Federica Battistini, Alberto Pérez, Montserrat Soler-López and Modesto Orozco
    Citation: BMC Genomics 2011 12:489
    Content type: Research article Published on:

  26. The green crab Carcinus maenas is known for its high acclimation potential to varying environmental abiotic conditions. A high ability for ion and acid-base regulation is mainly based on an efficient regulation a...

    Authors: Sandra Fehsenfeld, Rainer Kiko, Yasmin Appelhans, David W Towle, Martin Zimmer and Frank Melzner
    Citation: BMC Genomics 2011 12:488
    Content type: Research article Published on:

  28. Detailed and comprehensive genome annotation can be considered a prerequisite for effective analysis and interpretation of omics data. As such, Gene Ontology (GO) annotation has become a well accepted framewor...

    Authors: Benjamin M Nitsche, Jonathan Crabtree, Gustavo C Cerqueira, Vera Meyer, Arthur FJ Ram and Jennifer R Wortman
    Citation: BMC Genomics 2011 12:486
    Content type: Research article Published on:

  29. Infections with hepatitis C virus (HCV) progress to chronic phase in 80% of patients. To date, the effect produced by HCV on the expression of microRNAs (miRs) involved in the interferon-β (IFN-β) antiviral pa...

    Authors: Roberto Bruni, Cinzia Marcantonio, Elena Tritarelli, Paola Tataseo, Emilia Stellacci, Angela Costantino, Umbertina Villano, Angela Battistini and Anna Rita Ciccaglione
    Citation: BMC Genomics 2011 12:485
    Content type: Research article Published on:

  30. Characterization of population structure and genetic diversity of germplasm is essential for the efficient organization and utilization of breeding material. The objectives of this study were to (i) explore th...

    Authors: Jinquan Li, Ann-Katrin Lühmann, Knuth Weißleder and Benjamin Stich
    Citation: BMC Genomics 2011 12:484
    Content type: Research article Published on:

  31. The study of gene families is pivotal for the understanding of gene evolution across different organisms and such phylogenetic background is often used to infer biochemical functions of genes. Modern high-thro...

    Authors: Thomas Meinel, Michal R Schweiger, Andreas H Ludewig, Ramu Chenna, Sylvia Krobitsch and Ralf Herwig
    Citation: BMC Genomics 2011 12:483
    Content type: Software Published on:

  32. Two strains of the silver fox (Vulpes vulpes), with markedly different behavioral phenotypes, have been developed by long-term selection for behavior. Foxes from the tame strain exhibit friendly behavior towards ...

    Authors: Anna V Kukekova, Jennifer L Johnson, Clotilde Teiling, Lewyn Li, Irina N Oskina, Anastasiya V Kharlamova, Rimma G Gulevich, Ravee Padte, Michael M Dubreuil, Anastasiya V Vladimirova, Darya V Shepeleva, Svetlana G Shikhevich, Qi Sun, Lalit Ponnala, Svetlana V Temnykh, Lyudmila N Trut…
    Citation: BMC Genomics 2011 12:482
    Content type: Research article Published on:

  33. Ascaris suum (large roundworm of pigs) is a parasitic nematode that causes substantial losses to the meat industry. This nematode is suitable for biochemical studies because, unlike C. elegans, homogeneous tissue...

    Authors: Xuan Ma, Yingjie Zhu, Chunfang Li, Yunlong Shang, Fanjing Meng, Shilin Chen and Long Miao
    Citation: BMC Genomics 2011 12:481
    Content type: Research article Published on:

  34. The mechanical properties of wood are largely determined by the orientation of cellulose microfibrils in secondary cell walls. Several genes and their allelic variants have previously been found to affect micr...

    Authors: Xinguo Li, Harry X Wu and Simon G Southerton
    Citation: BMC Genomics 2011 12:480
    Content type: Research article Published on:

  35. Clostridium beijerinckii is an important solvent producing microorganism. The genome of C. beijerinckii NCIMB 8052 has recently been sequenced. Although transcriptome structure is important in order to reveal the...

    Authors: Yi Wang, Xiangzhen Li, Yuejian Mao and Hans P Blaschek
    Citation: BMC Genomics 2011 12:479
    Content type: Research article Published on:

  36. Hundreds of millions of people are infected with cryptosporidiosis annually, with immunocompromised individuals suffering debilitating symptoms and children in socioeconomically challenged regions at risk of r...

    Authors: Jennifer D Artz, Amy K Wernimont, Abdellah Allali-Hassani, Yong Zhao, Mehrnaz Amani, Yu-Hui Lin, Guillermo Senisterra, Gregory A Wasney, Oleg Fedorov, Oliver King, Annette Roos, Vlad V Lunin, Wei Qiu, Patrick Finerty Jr, Ashley Hutchinson, Irene Chau…
    Citation: BMC Genomics 2011 12:478
    Content type: Research article Published on:

  37. An isolate originally labeled Bacillus megaterium CDC 684 was found to contain both pXO1 and pXO2, was non-hemolytic, sensitive to gamma-phage, and produced both the protective antigen and the poly-D-glutamic aci...

    Authors: Richard T Okinaka, Erin P Price, Spenser R Wolken, Jeffrey M Gruendike, Wai Kwan Chung, Talima Pearson, Gary Xie, Chris Munk, Karen K Hill, Jean Challacombe, Bruce E Ivins, James M Schupp, Stephen M Beckstrom-Sternberg, Arthur Friedlander and Paul Keim
    Citation: BMC Genomics 2011 12:477
    Content type: Research article Published on:

  38. The transcription factor MYC is a critical regulator of diverse cellular processes, including both replication and apoptosis. Differences in MYC-regulated gene expression responsible for such opposing outcomes in...

    Authors: Samuel C Robson, Lesley Ward, Helen Brown, Heather Turner, Ewan Hunter, Stella Pelengaris and Michael Khan
    Citation: BMC Genomics 2011 12:476
    Content type: Research article Published on:

  39. The 20-hydroxyecdysone (20E) hierarchy of gene activation serves as an attractive model system for studying the mode of steroid hormone regulated gene expression and development. Many structural analogs of 20E...

    Authors: Sarah E Gonsalves, Scott J Neal, Amy S Kehoe and J Timothy Westwood
    Citation: BMC Genomics 2011 12:475
    Content type: Research article Published on:

  40. Studies of closely related species with different sex chromosome systems can provide insights into the processes of sex chromosome differentiation and evolution. To investigate the potential utility of molecul...

    Authors: Takahito Shikano, Heini M Natri, Yukinori Shimada and Juha Merilä
    Citation: BMC Genomics 2011 12:474
    Content type: Research article Published on:

  41. The turbot (Scophthalmus maximus) is a highly appreciated European aquaculture species. Growth related traits constitute the main goal of the ongoing genetic breeding programs of this species. The recent construc...

    Authors: Enrique Sánchez-Molano, Alex Cerna, Miguel A Toro, Carmen Bouza, Miguel Hermida, Belén G Pardo, Santiago Cabaleiro, Jesús Fernández and Paulino Martínez
    Citation: BMC Genomics 2011 12:473
    Content type: Research article Published on:

  42. Burkholderia cenocepacia is a Gram-negative opportunistic pathogen displaying high resistance to antimicrobial peptides and polymyxins. We identified mechanisms of resistance by analyzing transcriptional changes ...

    Authors: Slade A Loutet, Flaviana Di Lorenzo, Chelsea Clarke, Antonio Molinaro and Miguel A Valvano
    Citation: BMC Genomics 2011 12:472
    Content type: Research article Published on:

  43. WRKY proteins are a large family of transcriptional regulators in higher plant. They are involved in many biological processes, such as plant development, metabolism, and responses to biotic and abiotic stress...

    Authors: Jian Ling, Weijie Jiang, Ying Zhang, Hongjun Yu, Zhenchuan Mao, Xingfang Gu, Sanwen Huang and Bingyan Xie
    Citation: BMC Genomics 2011 12:471
    Content type: Research article Published on:

  44. Evolution of the Brassica species has been recursively affected by polyploidy events, and comparison to their relative, Arabidopsis thaliana, provides means to explore their genomic complexity.

    Authors: Xiyin Wang, Manuel J Torres, Gary Pierce, Cornelia Lemke, Lisa K Nelson, Bayram Yuksel, John E Bowers, Barry Marler, Yongli Xiao, Lifeng Lin, Ethan Epps, Heidi Sarazen, Carl Rogers, Santhosh Karunakaran, Jennifer Ingles, Emily Giattina…
    Citation: BMC Genomics 2011 12:470
    Content type: Research article Published on:

  45. Avian pathogenic Escherichia coli (APEC) is detrimental to poultry health and its zoonotic potential is a food safety concern. Regulation of antimicrobials in food-production animals has put greater focus on enha...

    Authors: Erin E Sandford, Megan Orr, Emma Balfanz, Nate Bowerman, Xianyao Li, Huaijun Zhou, Timothy J Johnson, Subhashinie Kariyawasam, Peng Liu, Lisa K Nolan and Susan J Lamont
    Citation: BMC Genomics 2011 12:469
    Content type: Research article Published on:

  46. Research using the Pacific oyster Crassostrea gigas as a model organism has experienced rapid growth in recent years due to the development of high-throughput molecular technologies. As many as 56,268 EST sequenc...

    Authors: Nolwenn M Dheilly, Christophe Lelong, Arnaud Huvet and Pascal Favrel
    Citation: BMC Genomics 2011 12:468
    Content type: Research article Published on:

  47. Bottle gourd [Lagenaria siceraria (Mol.) Standl.] is an important cucurbit crop worldwide. Archaeological research indicates that bottle gourd was domesticated more than 10,000 years ago, making it one of the ear...

    Authors: Pei Xu, Xiaohua Wu, Jie Luo, Baogen Wang, Yonghua Liu, Jeffrey D Ehlers, Sha Wang, Zhongfu Lu and Guojing Li
    Citation: BMC Genomics 2011 12:467
    Content type: Research article Published on:

  49. The creation of lymphoblastoid cell lines (LCLs) through Epstein-Barr virus (EBV) transformation of B-lymphocytes can result in a valuable biomaterial for cell biology research and a renewable source of DNA. W...

    Authors: Eric R Londin, Margaret A Keller, Michael R D'Andrea, Kathleen Delgrosso, Adam Ertel, Saul Surrey and Paolo Fortina
    Citation: BMC Genomics 2011 12:464
    Content type: Research article Published on:

  50. HIP1 Protein Interactor (HIPPI) is a pro-apoptotic protein that induces Caspase8 mediated apoptosis in cell. We have shown earlier that HIPPI could interact with a specific 9 bp sequence motif, defined as the ...

    Authors: Moumita Datta, Ananyo Choudhury, Ansuman Lahiri and Nitai P Bhattacharyya
    Citation: BMC Genomics 2011 12:463
    Content type: Research article Published on:

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BMC Genomics

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