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  1. Zunongwangia profunda SM-A87, which was isolated from deep-sea sediment, is an aerobic, gram-negative bacterium that represents a new genus of Flavobacteriaceae. This is the first sequenced genome of a deep-sea b...

    Authors: Qi-Long Qin, Xi-Ying Zhang, Xu-Min Wang, Gui-Ming Liu, Xiu-Lan Chen, Bin-Bin Xie, Hong-Yue Dang, Bai-Cheng Zhou, Jun Yu and Yu-Zhong Zhang
    Citation: BMC Genomics 2010 11:247
    Content type: Research article Published on:

  2. Red-flesh fruit is absent from common sweet orange varieties, but is more preferred by consumers due to its visual attraction and nutritional properties. Our previous researches on a spontaneous red-flesh muta...

    Authors: Qiang Xu, Yuanlong Liu, Andan Zhu, Xiaomeng Wu, Junli Ye, Keqin Yu, Wenwu Guo and Xiuxin Deng
    Citation: BMC Genomics 2010 11:246
    Content type: Research article Published on:

  3. Small untranslated RNAs (sRNAs) are widespread regulators of gene expression in bacteria. This study reports on a comprehensive screen for sRNAs in the symbiotic nitrogen-fixing alpha-proteobacterium Sinorhizobiu...

    Authors: Jan-Philip Schlüter, Jan Reinkensmeier, Svenja Daschkey, Elena Evguenieva-Hackenberg, Stefan Janssen, Sebastian Jänicke, Jörg D Becker, Robert Giegerich and Anke Becker
    Citation: BMC Genomics 2010 11:245
    Content type: Research article Published on:

  4. DNA copy number variations occur within populations and aberrations can cause disease. We sought to develop an improved lab-automatable, cost-efficient, accurate platform to profile DNA copy number.

    Authors: John C Castle, Matthew Biery, Heather Bouzek, Tao Xie, Ronghua Chen, Kira Misura, Stuart Jackson, Christopher D Armour, Jason M Johnson, Carol A Rohl and Christopher K Raymond
    Citation: BMC Genomics 2010 11:244
    Content type: Methodology article Published on:

  5. Bacillus subtilis natto is closely related to the laboratory standard strain B. subtilis Marburg 168, and functions as a starter for the production of the traditional Japanese food "natto" made from soybeans. Alt...

    Authors: Yukari Nishito, Yasunori Osana, Tsuyoshi Hachiya, Kris Popendorf, Atsushi Toyoda, Asao Fujiyama, Mitsuhiro Itaya and Yasubumi Sakakibara
    Citation: BMC Genomics 2010 11:243
    Content type: Research article Published on:

  6. While new sequencing technologies have ushered in an era where microbial genomes can be easily sequenced, the goal of routinely producing high-quality draft and finished genomes in a cost-effective fashion has...

    Authors: Niranjan Nagarajan, Christopher Cook, MariaPia Di Bonaventura, Hong Ge, Allen Richards, Kimberly A Bishop-Lilly, Robert DeSalle, Timothy D Read and Mihai Pop
    Citation: BMC Genomics 2010 11:242
    Content type: Correspondence Published on:

  7. Prostaglandin E2 (PGE2) is involved in several chronic inflammatory diseases including periodontitis, which causes loss of the gingival tissue and alveolar bone supporting the teeth. We have previously shown that...

    Authors: Tove Båge, Johan Lindberg, Joakim Lundeberg, Thomas Modéer and Tülay Yucel-Lindberg
    Citation: BMC Genomics 2010 11:241
    Content type: Research article Published on:

  8. Due to the high morbidity and mortality of fulminant hepatitis, early diagnosis followed by early effective treatment is the key for prognosis improvement. So far, little is known about the gene expression cha...

    Authors: Feng Chen, Hai-Hong Zhu, Lin-Fu Zhou, Jie Li, Li-Ying Zhao, Shan-Shan Wu, Jing Wang, Wei Liu and Zhi Chen
    Citation: BMC Genomics 2010 11:240
    Content type: Research article Published on:

  9. The Gram-positive bacterium Enterococcus faecium is an important cause of nosocomial infections in immunocompromized patients.

    Authors: Willem van Schaik, Janetta Top, David R Riley, Jos Boekhorst, Joyce EP Vrijenhoek, Claudia ME Schapendonk, Antoni PA Hendrickx, Isaäc J Nijman, Marc JM Bonten, Hervé Tettelin and Rob JL Willems
    Citation: BMC Genomics 2010 11:239
    Content type: Research article Published on:

  10. Citrus canker is a disease that has severe economic impact on the citrus industry worldwide. There are three types of canker, called A, B, and C. The three types have different phenotypes and affect different ...

    Authors: Leandro M Moreira, Nalvo F Almeida Jr, Neha Potnis, Luciano A Digiampietri, Said S Adi, Julio C Bortolossi, Ana C da Silva, Aline M da Silva, Fabrício E de Moraes, Julio C de Oliveira, Robson F de Souza, Agda P Facincani, André L Ferraz, Maria I Ferro, Luiz R Furlan, Daniele F Gimenez…
    Citation: BMC Genomics 2010 11:238
    Content type: Research article Published on:

  11. The thioredoxin and/or glutathione pathways occur in all organisms. They provide electrons for deoxyribonucleotide synthesis, function as antioxidant defenses, in detoxification, Fe/S biogenesis and participat...

    Authors: Lucía Otero, Mariana Bonilla, Anna V Protasio, Cecilia Fernández, Vadim N Gladyshev and Gustavo Salinas
    Citation: BMC Genomics 2010 11:237
    Content type: Research article Published on:

  12. The nematode C. briggsae serves as a useful model organism for comparative analysis of developmental and behavioral processes. The amenability of C. briggsae to genetic manipulations and the availability of its g...

    Authors: Daniel C Koboldt, Julia Staisch, Bavithra Thillainathan, Karen Haines, Scott E Baird, Helen M Chamberlin, Eric S Haag, Raymond D Miller and Bhagwati P Gupta
    Citation: BMC Genomics 2010 11:236
    Content type: Research article Published on:

  13. Plasmodium falciparum, the causative agent of severe human malaria, has evolved to become resistant to previously successful antimalarial chemotherapies, most notably chloroquine and the antifolates. The prevalen...

    Authors: John VW Becker, Linda Mtwisha, Bridget G Crampton, Stoyan Stoychev, Anna C van Brummelen, Shaun Reeksting, Abraham I Louw, Lyn-Marie Birkholtz and Dalu T Mancama
    Citation: BMC Genomics 2010 11:235
    Content type: Research article Published on:

  14. The constant increase in development and spread of bacterial resistance to antibiotics poses a serious threat to human health. New sequencing technologies are now on the horizon that will yield massive increas...

    Authors: Andreas Dötsch, Frank Klawonn, Michael Jarek, Maren Scharfe, Helmut Blöcker and Susanne Häussler
    Citation: BMC Genomics 2010 11:234
    Content type: Research article Published on:

  16. Recently, the discovery of copy number variation (CNV) led researchers to think that there are more variations of genomic DNA than initially believed. Moreover, a certain CNV region has been found to be associ...

    Authors: Joon Seol Bae, Hyun Sub Cheong, Lyoung Hyo Kim, Suk NamGung, Tae Joon Park, Ji-Yong Chun, Jason Yongha Kim, Charisse Flerida A Pasaje, Jin Sol Lee and Hyoung Doo Shin
    Citation: BMC Genomics 2010 11:232
    Content type: Research article Published on:

  17. Chromodomain-containing Gypsy LTR retrotransposons or chromoviruses are widely distributed among eukaryotes and have been found in plants, fungi and vertebrates. The previous comprehensive survey of chromoviru...

    Authors: Olga Novikova, Georgiy Smyshlyaev and Alexander Blinov
    Citation: BMC Genomics 2010 11:231
    Content type: Research article Published on:

  18. Uncovering the molecular mechanisms involved in epileptogenesis is critical to better understand the physiopathology of epilepsies and to help develop new therapeutic strategies for this prevalent and severe n...

    Authors: Oswaldo K Okamoto, Luciana Janjoppi, Felipe M Bonone, Aline P Pansani, Alexandre V da Silva, Fúlvio A Scorza and Esper A Cavalheiro
    Citation: BMC Genomics 2010 11:230
    Content type: Research article Published on:

  20. Perkinsus marinus, a protozoan parasite of the eastern oyster Crassostrea virginica, has devastated natural and farmed oyster populations along the Atlantic and Gulf coasts of the United States. It is classified ...

    Authors: Sandeep J Joseph, José A Fernández-Robledo, Malcolm J Gardner, Najib M El-Sayed, Chih-Horng Kuo, Eric J Schott, Haiming Wang, Jessica C Kissinger and Gerardo R Vasta
    Citation: BMC Genomics 2010 11:228
    Content type: Research article Published on:

  21. The common liver fluke Fasciola hepatica is the agent of a zoonosis with significant economic consequences in livestock production worldwide, and increasing relevance to human health in developing countries. Alth...

    Authors: Martín Cancela, Natalia Ruétalo, Nicolás Dell'Oca, Edileuza da Silva, Pablo Smircich, Gabriel Rinaldi, Leda Roche, Carlos Carmona, Fernando Alvarez-Valín, Arnaldo Zaha and José F Tort
    Citation: BMC Genomics 2010 11:227
    Content type: Research article Published on:

  22. Cytokines such as TNF-alpha and IL-1beta are known for their contribution to inflammatory processes in liver. In contrast, the cytokine IL-17 has not yet been assigned a role in liver diseases. IL-17 can coope...

    Authors: Titus Sparna, Julia Rétey, Kathrin Schmich, Ute Albrecht, Katrin Naumann, Norbert Gretz, Hans-Peter Fischer, Johannes G Bode and Irmgard Merfort
    Citation: BMC Genomics 2010 11:226
    Content type: Research article Published on:

  23. Brugia malayi and B. pahangi are two closely related nematodes that cause filariasis in humans and animals. However, B. pahangi microfilariae are able to develop in and be transmitted by the mosquito, Armigeres s...

    Authors: Michael M Kariuki, Leonard B Hearne and Brenda T Beerntsen
    Citation: BMC Genomics 2010 11:225
    Content type: Research article Published on:

  24. MicroRNA-mediated control of gene expression via translational inhibition has substantial impact on cellular regulatory mechanisms. About 37% of mammalian microRNAs appear to be located within introns of prote...

    Authors: Dominik Lutter, Carsten Marr, Jan Krumsiek, Elmar W Lang and Fabian J Theis
    Citation: BMC Genomics 2010 11:224
    Content type: Research article Published on:

  26. New drug targets are urgently needed for parasites of socio-economic importance. Genes that are essential for parasite survival are highly desirable targets, but information on these genes is lacking, as gene ...

    Authors: Maria A Doyle, Robin B Gasser, Ben J Woodcroft, Ross S Hall and Stuart A Ralph
    Citation: BMC Genomics 2010 11:222
    Content type: Research article Published on:

  28. The degradome -the complete repertoire of proteases in an organism- is involved in multiple key biological and pathological processes. Previous studies in several organisms have yielded sets of curated proteas...

    Authors: Víctor Quesada, Gloria Velasco, Xose S Puente, Wesley C Warren and Carlos López-Otín
    Citation: BMC Genomics 2010 11:220
    Content type: Research article Published on:

  29. In order to understand patterns of adaptation and molecular evolution it is important to quantify both variation in gene expression and nucleotide sequence divergence. Gene expression profiling in non-model or...

    Authors: Robert Ekblom, Christopher N Balakrishnan, Terry Burke and Jon Slate
    Citation: BMC Genomics 2010 11:219
    Content type: Research article Published on:

  30. Genetic linkage maps are essential tools when searching for quantitative trait loci (QTL). To maximize genome coverage and provide an evenly spaced marker distribution a combination of different types of genet...

    Authors: Alexander D Ball, Jessica Stapley, Deborah A Dawson, Tim R Birkhead, Terry Burke and Jon Slate
    Citation: BMC Genomics 2010 11:218
    Content type: Research article Published on:

  32. The control of mosquitoes transmitting infectious diseases relies mainly on the use of chemical insecticides. However, mosquito control programs are now threatened by the emergence of insecticide resistance. H...

    Authors: Jean-Philippe David, Eric Coissac, Christelle Melodelima, Rodolphe Poupardin, Muhammad Asam Riaz, Alexia Chandor-Proust and Stéphane Reynaud
    Citation: BMC Genomics 2010 11:216
    Content type: Research article Published on:

  33. The mountain pine beetle (Dendroctonus ponderosae) is a significant coniferous forest pest in western North America. It relies on aggregation pheromones to colonize hosts. Its three major pheromone components, tr...

    Authors: Tidiane Aw, Karen Schlauch, Christopher I Keeling, Sharon Young, Jeremy C Bearfield, Gary J Blomquist and Claus Tittiger
    Citation: BMC Genomics 2010 11:215
    Content type: Research article Published on:

  34. Our understanding of the dynamics of genome stability versus gene flux within bacteriophage lineages is limited. Recently, there has been a renewed interest in the use of bacteriophages as 'therapeutic' agents; a...

    Authors: Andrew R Timms, Joanna Cambray-Young, Andrew E Scott, Nicola K Petty, Phillippa L Connerton, Louise Clarke, Kathy Seeger, Mike Quail, Nicola Cummings, Duncan J Maskell, Nicholas R Thomson and Ian F Connerton
    Citation: BMC Genomics 2010 11:214
    Content type: Research article Published on:

  35. Blood feeding evolved independently in worms, arthropods and mammals. Among the adaptations to this peculiar diet, these animals developed an armament of salivary molecules that disarm their host's anti-bleedi...

    Authors: Juliana Alves-Silva, José MC Ribeiro, Jan Van Den Abbeele, Geoffrey Attardo, Zhengrong Hao, Lee R Haines, Marcelo B Soares, Matthew Berriman, Serap Aksoy and Michael J Lehane
    Citation: BMC Genomics 2010 11:213
    Content type: Research article Published on:

  36. Mercury is a prominent environmental contaminant that causes detrimental effects to human health. Although the liver has been known to be a main target organ, there is limited information on in vivo molecular mec...

    Authors: Choong Yong Ung, Siew Hong Lam, Mya Myintzu Hlaing, Cecilia Lanny Winata, Svetlana Korzh, Sinnakaruppan Mathavan and Zhiyuan Gong
    Citation: BMC Genomics 2010 11:212
    Content type: Research article Published on:

  37. The male Atlantic salmon generally matures in fresh water upon returning after one or several years at sea. Some fast-growing male parr develop an alternative life strategy where they sexually mature before mi...

    Authors: Aoife Guiry, Denis Flynn, Sophie Hubert, Allan M O'Keeffe, Olivier LeProvost, Samantha L White, Patrick F Forde, Pamela Davoren, Benoit Houeix, Terry J Smith, Deirdre Cotter, Noel P Wilkins and Michael T Cairns
    Citation: BMC Genomics 2010 11:211
    Content type: Research article Published on:

  38. The Solanaceae family includes several economically important vegetable crops. The tomato (Solanum lycopersicum) is regarded as a model plant of the Solanaceae family. Recently, a number of tomato resources have ...

    Authors: Koh Aoki, Kentaro Yano, Ayako Suzuki, Shingo Kawamura, Nozomu Sakurai, Kunihiro Suda, Atsushi Kurabayashi, Tatsuya Suzuki, Taneaki Tsugane, Manabu Watanabe, Kazuhide Ooga, Maiko Torii, Takanori Narita, Tadasu Shin-i, Yuji Kohara, Naoki Yamamoto…
    Citation: BMC Genomics 2010 11:210
    Content type: Research article Published on:

  39. Plant mitochondrial genomes are known for their complexity, and there is abundant evidence demonstrating that this organelle is important for plant sexual reproduction. Cytoplasmic male sterility (CMS) is a ph...

    Authors: Sota Fujii, Tomohiko Kazama, Mari Yamada and Kinya Toriyama
    Citation: BMC Genomics 2010 11:209
    Content type: Research article Published on:

  40. Fusarium graminearum (Fg), a major fungal pathogen of cultivated cereals, is responsible for billions of dollars in agriculture losses. There is a growing interest in understanding the transcriptional regulation ...

    Authors: Lokesh Kumar, Andrew Breakspear, Corby Kistler, Li-Jun Ma and Xiaohui Xie
    Citation: BMC Genomics 2010 11:208
    Content type: Research article Published on:

  41. The effect of osmolarity on cellular physiology has been subject of investigation in many different species. High osmolarity is of importance for biotechnological production processes, where high cell densitie...

    Authors: Martin Dragosits, Johannes Stadlmann, Alexandra Graf, Brigitte Gasser, Michael Maurer, Michael Sauer, David P Kreil, Friedrich Altmann and Diethard Mattanovich
    Citation: BMC Genomics 2010 11:207
    Content type: Research article Published on:

  42. Expansion of multi-C2H2 domain zinc finger (ZNF) genes, including the Krüppel-associated box (KRAB) subfamily, paralleled the evolution of tetrapodes, particularly in mammalian lineages. Advances in their cata...

    Authors: Peter Lorenz, Sabine Dietmann, Thomas Wilhelm, Dirk Koczan, Sandra Autran, Sophie Gad, Gaiping Wen, Guohui Ding, Yixue Li, Marie-Françoise Rousseau-Merck and Hans-Juergen Thiesen
    Citation: BMC Genomics 2010 11:206
    Content type: Research article Published on:

  43. The 3' untranslated regions (UTRs) of transcripts are not well characterized for many genes and often extend beyond the annotated regions. Since Affymetrix 3' expression arrays were designed based on expressed...

    Authors: Lieven Thorrez, Leon-Charles Tranchevent, Hui Ju Chang, Yves Moreau and Frans Schuit
    Citation: BMC Genomics 2010 11:205
    Content type: Methodology article Published on:

  44. Most of the grapevine (Vitis vinifera L.) cultivars grown today are those selected centuries ago, even though grapevine is one of the most important fruit crops in the world. Grapevine has therefore not benefited...

    Authors: Simone Scalabrin, Michela Troggio, Marco Moroldo, Massimo Pindo, Nicoletta Felice, Giuseppina Coppola, Giacomo Prete, Giulia Malacarne, Raffaella Marconi, Giorgia Faes, Irena Jurman, Stella Grando, Taco Jesse, Cinzia Segala, Giorgio Valle, Alberto Policriti…
    Citation: BMC Genomics 2010 11:204
    Content type: Research article Published on:

  45. Vascular endothelial growth factor (VEGF) is an endothelial cell mitogen that stimulates vasculogenesis. It has also been shown to act as a neurotrophic factor in vitro and in vivo. Deletion of the hypoxia respon...

    Authors: Alice Brockington, Paul R Heath, Hazel Holden, Paul Kasher, Florian LP Bender, Filip Claes, Diether Lambrechts, Michael Sendtner, Peter Carmeliet and Pamela J Shaw
    Citation: BMC Genomics 2010 11:203
    Content type: Research article Published on:

  46. The transition from exponential to stationary phase in Streptomyces coelicolor is accompanied by a major metabolic switch and results in a strong activation of secondary metabolism. Here we have explored the unde...

    Authors: Mohammad T Alam, Maria E Merlo, David A Hodgson, Elizabeth MH Wellington, Eriko Takano and Rainer Breitling
    Citation: BMC Genomics 2010 11:202
    Content type: Research article Published on:

  47. Species of the bear family (Ursidae) are important organisms for research in molecular evolution, comparative physiology and conservation biology, but relatively little genetic sequence information is available f...

    Authors: Sen Zhao, Chunxuan Shao, Anna V Goropashnaya, Nathan C Stewart, Yichi Xu, Øivind Tøien, Brian M Barnes, Vadim B Fedorov and Jun Yan
    Citation: BMC Genomics 2010 11:201
    Content type: Research article Published on:

  48. Gcn5 is a transcriptional coactivator with histone acetyltransferase activity that is conserved with regard to structure as well as its histone substrates throughout the eukaryotes. Gene regulatory networks wi...

    Authors: Yongtao Xue-Franzén, Anna Johnsson, David Brodin, Johan Henriksson, Thomas R Bürglin and Anthony PH Wright
    Citation: BMC Genomics 2010 11:200
    Content type: Research article Published on:

  49. Tyrosine kinase 2 (Tyk2), a central component of Janus kinase/signal transducer and activator of transcription (JAK/STAT) signaling, has major effects on innate immunity and inflammation. Mice lacking Tyk2 are...

    Authors: Claus Vogl, Thomas Flatt, Bernd Fuhrmann, Elisabeth Hofmann, Barbara Wallner, Rita Stiefvater, Pavel Kovarik, Birgit Strobl and Mathias Müller
    Citation: BMC Genomics 2010 11:199
    Content type: Research article Published on:

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BMC Genomics

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