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  1. Flexible genomes facilitate bacterial evolution and are classically organized into polymorphic strain-specific segments called regions of genomic plasticity (RGPs). Using a new web tool, RGPFinder, we investigate...

    Authors: Jean-Claude Ogier, Alexandra Calteau, Steve Forst, Heidi Goodrich-Blair, David Roche, Zoé Rouy, Garret Suen, Robert Zumbihl, Alain Givaudan, Patrick Tailliez, Claudine Médigue and Sophie Gaudriault
    Citation: BMC Genomics 2010 11:568
    Content type: Research article Published on:

  3. The Anopheles gambiae salivary glands play a major role in malaria transmission and express a variety of bioactive components that facilitate blood-feeding by preventing platelet aggregation, blood clotting, vaso...

    Authors: Suchismita Das, Andrea Radtke, Young-Jun Choi, Antonio M Mendes, Jesus G Valenzuela and George Dimopoulos
    Citation: BMC Genomics 2010 11:566
    Content type: Research article Published on:

  4. In addition to acting as an RNA quality control pathway, nonsense-mediated mRNA decay (NMD) plays roles in regulating normal gene expression. In particular, the extent to which alternative splicing is coupled ...

    Authors: Nicholas J McGlincy, Lit-Yeen Tan, Nicodeme Paul, Mihaela Zavolan, Kathryn S Lilley and Christopher WJ Smith
    Citation: BMC Genomics 2010 11:565
    Content type: Research article Published on:

  5. Rainbow trout are important fish for aquaculture and recreational fisheries and serves as a model species for research investigations associated with carcinogenesis, comparative immunology, toxicology and evol...

    Authors: Mohamed Salem, Caird E Rexroad III, Jiannan Wang, Gary H Thorgaard and Jianbo Yao
    Citation: BMC Genomics 2010 11:564
    Content type: Research article Published on:

  7. Flavonoid 3',5'-hydroxylases (F3'5'Hs) and flavonoid 3'-hydroxylases (F3'Hs) competitively control the synthesis of delphinidin and cyanidin, the precursors of blue and red anthocyanins. In most plants, F3'5'H ge...

    Authors: Luigi Falginella, Simone D Castellarin, Raffaele Testolin, Gregory A Gambetta, Michele Morgante and Gabriele Di Gaspero
    Citation: BMC Genomics 2010 11:562
    Content type: Research article Published on:

  8. Mycobacterium avium subsp. paratuberculosis (MAP) persistently infects intestines and mesenteric lymph nodes leading to a prolonged subclinical disease. The MAP genome sequence was published in 2005, yet its tran...

    Authors: Harish K Janagama, Elise A Lamont, Sajan George, John P Bannantine, Wayne W Xu, Zheng J Tu, Scott J Wells, Jeremy Schefers and Srinand Sreevatsan
    Citation: BMC Genomics 2010 11:561
    Content type: Research article Published on:

  9. Microsatellites are markers of choice in population genetics and genomics, as they provide useful insight into patterns and processes as diverse as genome evolutionary dynamics and demographic processes. The a...

    Authors: Jean-Francois Martin, Nicolas Pech, Emese Meglécz, Stéphanie Ferreira, Caroline Costedoat, Vincent Dubut, Thibaut Malausa and André Gilles
    Citation: BMC Genomics 2010 11:560
    Content type: Research article Published on:

  10. Bathymodiolus azoricus is a deep-sea hydrothermal vent mussel found in association with large faunal communities living in chemosynthetic environments at the bottom of the sea floor near the Azores Islands. Inves...

    Authors: Raul Bettencourt, Miguel Pinheiro, Conceição Egas, Paula Gomes, Mafalda Afonso, Timothy Shank and Ricardo Serrão Santos
    Citation: BMC Genomics 2010 11:559
    Content type: Research article Published on:

  12. Physiological left ventricular hypertrophy (LVH) involves complex cardiac remodeling that occurs as an adaptive response to chronic exercise. A stark clinical contrast exists between physiological LVH and path...

    Authors: Ignat Drozdov, Sophia Tsoka, Christos A Ouzounis and Ajay M Shah
    Citation: BMC Genomics 2010 11:557
    Content type: Research article Published on:

  13. Streptococcus suis serotype 2 (SS2), a major swine pathogen and an emerging zoonotic agent, has greatly challenged global public health. Systematical information about host immune response to the infection is imp...

    Authors: Ran Li, Anding Zhang, Bo Chen, Liu Teng, Ya Wang, Huanchun Chen and Meilin Jin
    Citation: BMC Genomics 2010 11:556
    Content type: Research article Published on:

  14. Clostridium sticklandii belongs to a cluster of non-pathogenic proteolytic clostridia which utilize amino acids as carbon and energy sources. Isolated by T.C. Stadtman in 1954, it has been generally regarded as a...

    Authors: Nuria Fonknechten, Sébastien Chaussonnerie, Sabine Tricot, Aurélie Lajus, Jan R Andreesen, Nadia Perchat, Eric Pelletier, Michel Gouyvenoux, Valérie Barbe, Marcel Salanoubat, Denis Le Paslier, Jean Weissenbach, Georges N Cohen and Annett Kreimeyer
    Citation: BMC Genomics 2010 11:555
    Content type: Research article Published on:

  15. Japanese flounder (Paralichthys olivaceus) is one of the most economically important marine species in Northeast Asia. Information on genetic markers associated with quantitative trait loci (QTL) can be used in b...

    Authors: Cecilia Castaño-Sánchez, Kanako Fuji, Akiyuki Ozaki, Osamu Hasegawa, Takashi Sakamoto, Kagayaki Morishima, Ichiro Nakayama, Atsushi Fujiwara, Tetsuji Masaoka, Hiroyuki Okamoto, Kengo Hayashida, Michihira Tagami, Jun Kawai, Yoshihide Hayashizaki and Nobuaki Okamoto
    Citation: BMC Genomics 2010 11:554
    Content type: Research article Published on:

  16. Dietary zinc supplementation may help to promote growth, boost the immune system, protect against diabetes, and aid recovery from diarrhoea. We exploited the zebrafish (Danio rerio) gill as a unique vertebrate io...

    Authors: Dongling Zheng, Peter Kille, Graham P Feeney, Phil Cunningham, Richard D Handy and Christer Hogstrand
    Citation: BMC Genomics 2010 11:553
    Content type: Research article Published on:

  17. Thoroughbred horses have been selected for traits contributing to speed and stamina for centuries. It is widely recognized that inherited variation in physical and physiological characteristics is responsible ...

    Authors: Emmeline W Hill, Beatrice A McGivney, Jingjing Gu, Ronan Whiston and David E MacHugh
    Citation: BMC Genomics 2010 11:552
    Content type: Research article Published on:

  18. Despite a high genetic similarity to peach, almonds (Prunus dulcis) have a fleshless fruit and edible kernel, produced as a crop for human consumption. While the release of peach genome v1.0 provides an excellent...

    Authors: Iraj Tavassolian, Gholmereza Rabiei, Davina Gregory, Mourad Mnejja, Michelle G Wirthensohn, Peter W Hunt, John P Gibson, Christopher M Ford, Margaret Sedgley and Shu-Biao Wu
    Citation: BMC Genomics 2010 11:551
    Content type: Research article Published on:

  19. Neighboring gene pairs in the genome of Saccharomyces cerevisiae have a tendency to be expressed at the same time. The distribution of histone modifications along chromatin fibers is suggested to be an important ...

    Authors: Yangyang Deng, Xianhua Dai, Qian Xiang, Zhiming Dai, Caisheng He, Jiang Wang and Jihua Feng
    Citation: BMC Genomics 2010 11:550
    Content type: Research article Published on:

  20. Insect innate immunity can be affected by juvenile hormone (JH) and 20-hydroxyecdysone (20E), but how innate immunity is developmentally regulated by these two hormones in insects has not yet been elucidated. ...

    Authors: Ling Tian, Enen Guo, Yupu Diao, Shun Zhou, Qin Peng, Yang Cao, Erjun Ling and Sheng Li
    Citation: BMC Genomics 2010 11:549
    Content type: Research article Published on:

  21. Zinc deficiency is detrimental to organisms, highlighting its role as an essential micronutrient contributing to numerous biological processes. To investigate the underlying molecular events invoked by zinc de...

    Authors: Dongling Zheng, Peter Kille, Graham P Feeney, Phil Cunningham, Richard D Handy and Christer Hogstrand
    Citation: BMC Genomics 2010 11:548
    Content type: Research article Published on:

  22. The genome of Paramecium tetraurelia, a unicellular model that belongs to the ciliate phylum, has been shaped by at least 3 successive whole genome duplications (WGD). These dramatic events, which have also been ...

    Authors: Olivier Arnaiz, Jean-François Goût, Mireille Bétermier, Khaled Bouhouche, Jean Cohen, Laurent Duret, Aurélie Kapusta, Eric Meyer and Linda Sperling
    Citation: BMC Genomics 2010 11:547
    Content type: Research article Published on:

  23. The pivotal role of stress in the precipitation of psychiatric diseases such as depression is generally accepted. This study aims at the identification of genes that are directly or indirectly responding to st...

    Authors: Amalia Tsolakidou, Ludwig Czibere, Benno Pütz, Dietrich Trümbach, Markus Panhuysen, Jan M Deussing, Wolfgang Wurst, Inge Sillaber, Rainer Landgraf, Florian Holsboer and Theo Rein
    Citation: BMC Genomics 2010 11:546
    Content type: Research article Published on:

  24. Macrophages play essential roles in both innate and adaptive immune responses. Bacteria require endotoxin, a complex lipopolysaccharide, for outer membrane permeability and the host interprets endotoxin as a s...

    Authors: Ceren Ciraci, Christopher K Tuggle, Michael J Wannemuehler, Dan Nettleton and Susan J Lamont
    Citation: BMC Genomics 2010 11:545
    Content type: Research article Published on:

  25. There was a large scale outbreak of the highly pathogenic porcine reproductive and respiratory syndrome (PRRS) in China and Vietnam during 2006 and 2007 that resulted in unusually high morbidity and mortality ...

    Authors: Shuqi Xiao, Delin Mo, Qiwei Wang, Jianyu Jia, Limei Qin, Xiangchun Yu, Yuna Niu, Xiao Zhao, Xiaohong Liu and Yaosheng Chen
    Citation: BMC Genomics 2010 11:544
    Content type: Research article Published on:

  26. Giardia intestinalis is a protozoan parasite that causes diarrhea in a wide range of mammalian species. To further understand the genetic diversity between the Giardia intestinalis species, we have performed geno...

    Authors: Jon Jerlström-Hultqvist, Oscar Franzén, Johan Ankarklev, Feifei Xu, Eva Nohýnková, Jan O Andersson, Staffan G Svärd and Björn Andersson
    Citation: BMC Genomics 2010 11:543
    Content type: Research article Published on:

  27. Validation of microarrays data by quantitative real-time PCR (qPCR) is often limited by the low amount of available RNA. This raised the possibility to perform validation experiments on the amplified amino all...

    Authors: Céline Jeanty, Dan Longrois, Paul-Michel Mertes, Daniel R Wagner and Yvan Devaux
    Citation: BMC Genomics 2010 11:542
    Content type: Methodology article Published on:

  28. Drosophila melanogaster females show changes in behavior and physiology after mating that are thought to maximize the number of progeny resulting from the most recent copulation. Sperm and seminal fluid proteins ...

    Authors: Justin E Dalton, Tanvi S Kacheria, Simon RV Knott, Matthew S Lebo, Allison Nishitani, Laura E Sanders, Emma J Stirling, Ari Winbush and Michelle N Arbeitman
    Citation: BMC Genomics 2010 11:541
    Content type: Research article Published on:

  29. The demands of microarray expression technologies for quantities of RNA place a limit on the questions they can address. As a consequence, the RNA requirements have reduced over time as technologies have impro...

    Authors: Andy G Lynch, James Hadfield, Mark J Dunning, Michelle Osborne, Natalie P Thorne and Simon Tavaré
    Citation: BMC Genomics 2010 11:540
    Content type: Research article Published on:

  30. The genomes of salmonids are considered pseudo-tetraploid undergoing reversion to a stable diploid state. Given the genome duplication and extensive biological data available for salmonids, they are excellent ...

    Authors: Nicole L Quinn, Keith A Boroevich, Krzysztof P Lubieniecki, William Chow, Evelyn A Davidson, Ruth B Phillips, Ben F Koop and William S Davidson
    Citation: BMC Genomics 2010 11:539
    Content type: Research article Published on:

  31. As genome sequences are determined for increasing numbers of model organisms, demand has grown for better tools to facilitate unified genome annotation efforts by communities of biologists. Typically this proc...

    Authors: Felix Kokocinski, Jennifer Harrow and Tim Hubbard
    Citation: BMC Genomics 2010 11:538
    Content type: Software Published on:

  32. In the past, molecular mechanisms that drive the initiation of an inflammatory response have been studied intensively. However, corresponding mechanisms that sustain the expression of inflammatory response gen...

    Authors: Astrid Riehl, Tobias Bauer, Benedikt Brors, Hauke Busch, Regina Mark, Julia Németh, Christoffer Gebhardt, Angelika Bierhaus, Peter Nawroth, Roland Eils, Rainer König, Peter Angel and Jochen Hess
    Citation: BMC Genomics 2010 11:537
    Content type: Research article Published on:

  33. Grosmannia clavigera is a bark beetle-vectored fungal pathogen of pines that causes wood discoloration and may kill trees by disrupting nutrient and water transport. Trees respond to attacks from beetles and asso...

    Authors: Uljana Hesse-Orce, Scott DiGuistini, Christopher I Keeling, Ye Wang, Maria Li, Hannah Henderson, T Roderick Docking, Nancy Y Liao, Gordon Robertson, Robert A Holt, Steven JM Jones, Jörg Bohlmann and Colette Breuil
    Citation: BMC Genomics 2010 11:536
    Content type: Research article Published on:

  35. Recent discoveries have highlighted the fact that alternative splicing and alternative transcripts are the rule, rather than the exception, in metazoan genes. Since multiple transcript and protein variants exp...

    Authors: Federico Zambelli, Giulio Pavesi, Carmela Gissi, David S Horner and Graziano Pesole
    Citation: BMC Genomics 2010 11:534
    Content type: Research article Published on:

  36. miRNAs are small, non-coding RNA molecules that mainly act as negative regulators of target gene messages. Due to their regulatory functions, they have lately been implicated in several diseases, including mal...

    Authors: Ludwig Christian G Hinske, Pedro AF Galante, Winston P Kuo and Lucila Ohno-Machado
    Citation: BMC Genomics 2010 11:533
    Content type: Research article Published on:

  37. Cellular senescence is a major barrier to tumour progression, though its role in pathogenesis of cancer and other diseases is poorly understood in vivo. Improved understanding of the degree to which latent sen...

    Authors: Kyle Lafferty-Whyte, Alan Bilsland, Claire J Cairney, Lorna Hanley, Nigel B Jamieson, Nadia Zaffaroni, Karin A Oien, Sharon Burns, Jon Roffey, Susan M Boyd and W Nicol Keith
    Citation: BMC Genomics 2010 11:532
    Content type: Research article Published on:

  38. The discovery and characterisation of factors governing innate immune responses in insects has driven the elucidation of many immune system components in mammals and other organisms. Focusing on the immune sys...

    Authors: Robert M Waterhouse, Michael Povelones and George K Christophides
    Citation: BMC Genomics 2010 11:531
    Content type: Research article Published on:

  39. CREB and CREM are closely related factors that regulate transcription in response to various stress, metabolic and developmental signals. The CREMÏ„ activator isoform is selectively expressed in haploid spermat...

    Authors: Igor Martianov, Mohamed-Amin Choukrallah, Arnaud Krebs, Tao Ye, Stephanie Legras, Erikjan Rijkers, Wilfred Van Ijcken, Bernard Jost, Paolo Sassone-Corsi and Irwin Davidson
    Citation: BMC Genomics 2010 11:530
    Content type: Research article Published on:

  40. Efforts using computational algorithms towards the enumeration of the full set of miRNAs of an organism have been limited by strong reliance on arguments of precursor conservation and feature similarity. Howev...

    Authors: Nuno D Mendes, Ana T Freitas, Ana T Vasconcelos and Marie-France Sagot
    Citation: BMC Genomics 2010 11:529
    Content type: Methodology article Published on:

  41. Plant class III peroxidases exist as a large multigenic family involved in numerous functions suggesting a functional specialization of each gene. However, few genes have been linked with a specific function. ...

    Authors: Claudia Cosio and Christophe Dunand
    Citation: BMC Genomics 2010 11:528
    Content type: Research article Published on:

  42. The transcription factor LexA plays an important role in the SOS response in Escherichia coli and many other bacterial species studied. Although the lexA gene is encoded in almost every bacterial group with a wid...

    Authors: Shan Li, Minli Xu and Zhengchang Su
    Citation: BMC Genomics 2010 11:527
    Content type: Research article Published on:

  43. The Limbal epithelial crypt (LEC) is a solid cord of cells, approximately 120 microns long. It arises from the undersurface of interpalisade rete ridges of the limbal palisades of Vogt and extends deeper into ...

    Authors: Bina B Kulkarni, Patrick J Tighe, Imran Mohammed, Aaron M Yeung, Desmond G Powe, Andrew Hopkinson, Vijay A Shanmuganathan and Harminder S Dua
    Citation: BMC Genomics 2010 11:526
    Content type: Research article Published on:

  44. Enzymes involved in carbohydrate metabolism include Carbohydrate esterases (CE), Glycoside hydrolases (GH), Glycosyl transferases (GT), and Polysaccharide lyases (PL), commonly referred to as carbohydrate-acti...

    Authors: Manuel D Ospina-Giraldo, John G Griffith, Emma W Laird and Christina Mingora
    Citation: BMC Genomics 2010 11:525
    Content type: Research article Published on:

  45. The construction of genetic linkage maps in free-living populations is a promising tool for the study of evolution. However, such maps are rare because it is difficult to develop both wild pedigrees and corres...

    Authors: Jocelyn Poissant, John T Hogg, Corey S Davis, Joshua M Miller, Jillian F Maddox and David W Coltman
    Citation: BMC Genomics 2010 11:524
    Content type: Research article Published on:

  46. Oral bacterial communities contain species that promote health and others that have been implicated in oral and/or systemic diseases. Culture-independent approaches provide the best means to assess the diversi...

    Authors: Vladimir Lazarevic, Katrine Whiteson, David Hernandez, Patrice François and Jacques Schrenzel
    Citation: BMC Genomics 2010 11:523
    Content type: Research article Published on:

  47. Pseudomonas fluorescens is a genetically and physiologically diverse species of bacteria present in many habitats and in association with plants. This species of bacteria produces a large array of secondary metab...

    Authors: Jeffrey A Kimbrel, Scott A Givan, Anne B Halgren, Allison L Creason, Dallice I Mills, Gary M Banowetz, Donald J Armstrong and Jeff H Chang
    Citation: BMC Genomics 2010 11:522
    Content type: Research article Published on:

  48. Clonorchis sinensis is a zoonotic parasite causing clonorchiasis-associated human disease such as biliary calculi, cholecystitis, liver cirrhosis, and it is currently classified as carcinogenic to humans for chol...

    Authors: Min-Jun Xu, Quan Liu, Alasdair J Nisbet, Xian-Quan Cai, Chao Yan, Rui-Qing Lin, Zi-Guo Yuan, Hui-Qun Song, Xian-Hui He and Xing-Quan Zhu
    Citation: BMC Genomics 2010 11:521
    Content type: Research article Published on:

  49. Miniature inverted-repeat transposable elements (MITEs) are widespread in plants and animals. Although silkworm (Bombyx mori) has a large amount of and a variety of transposable elements, the genome-wide informat...

    Authors: Min-Jin Han, Yi-Hong Shen, Ying-Hui Gao, Li-Yong Chen, Zhong-Huai Xiang and Ze Zhang
    Citation: BMC Genomics 2010 11:520
    Content type: Research article Published on:

  50. DNA methylation can regulate gene expression by modulating the interaction between DNA and proteins or protein complexes. Conserved consensus motifs exist across the human genome ("predicted transcription fact...

    Authors: Mun-Kit Choy, Mehregan Movassagh, Hock-Guan Goh, Martin R Bennett, Thomas A Down and Roger SY Foo
    Citation: BMC Genomics 2010 11:519
    Content type: Research article Published on:

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BMC Genomics

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