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  1. The larvae of the greater wax moth Galleria mellonella are increasingly used (i) as mini-hosts to study pathogenesis and virulence factors of prominent bacterial and fungal human pathogens, (ii) as a whole-animal...

    Authors: Heiko Vogel, Boran Altincicek, Gernot Glöckner and Andreas Vilcinskas
    Citation: BMC Genomics 2011 12:308
    Content type: Research article Published on:

  2. Small RNAs (19-24 nt) are key regulators of gene expression that guide both transcriptional and post-transcriptional silencing mechanisms in eukaryotes. Current studies have demonstrated that microRNAs (miRNAs...

    Authors: Franceli R Kulcheski, Luiz FV de Oliveira, Lorrayne G Molina, Maurício P Almerão, Fabiana A Rodrigues, Juliana Marcolino, Joice F Barbosa, Renata Stolf-Moreira, Alexandre L Nepomuceno, Francismar C Marcelino-Guimarães, Ricardo V Abdelnoor, Leandro C Nascimento, Marcelo F Carazzolle, Gonçalo AG Pereira and Rogério Margis
    Citation: BMC Genomics 2011 12:307
    Content type: Research article Published on:

  3. Seminal fluid plays an important role in successful fertilization, but knowledge of the full suite of proteins transferred from males to females during copulation is incomplete. The list of ejaculated proteins...

    Authors: Matthew D Dean, Geoffrey D Findlay, Michael R Hoopmann, Christine C Wu, Michael J MacCoss, Willie J Swanson and Michael W Nachman
    Citation: BMC Genomics 2011 12:306
    Content type: Research article Published on:

  4. The intestinal mucosa is characterized by complex metabolic and immunological processes driven highly dynamic gene expression programs. With the advent of next generation sequencing and its utilization for the...

    Authors: Ulrich C Klostermeier, Matthias Barann, Michael Wittig, Robert Häsler, Andre Franke, Olga Gavrilova, Benjamin Kreck, Christian Sina, Markus B Schilhabel, Stefan Schreiber and Philip Rosenstiel
    Citation: BMC Genomics 2011 12:305
    Content type: Research article Published on:

  5. The eggplant (Solanum melongena L.) genome is relatively unexplored, especially compared to those of the other major Solanaceae crops tomato and potato. In particular, no SNP markers are publicly available; on th...

    Authors: Lorenzo Barchi, Sergio Lanteri, Ezio Portis, Alberto Acquadro, Giampiero Valè, Laura Toppino and Giuseppe Leonardo Rotino
    Citation: BMC Genomics 2011 12:304
    Content type: Research article Published on:

  6. Folding and intermingling of chromosomes has the potential of bringing close to each other loci that are very distant genomically or even on different chromosomes. On the other hand, genomic rearrangements als...

    Authors: Amélie S Véron, Claire Lemaitre, Christian Gautier, Vincent Lacroix and Marie-France Sagot
    Citation: BMC Genomics 2011 12:303
    Content type: Research article Published on:

  7. Current breeding approaches in potato rely almost entirely on phenotypic evaluations; molecular markers, with the exception of a few linked to disease resistance traits, are not widely used. Large-scale sequen...

    Authors: John P Hamilton, Candice N Hansey, Brett R Whitty, Kevin Stoffel, Alicia N Massa, Allen Van Deynze, Walter S De Jong, David S Douches and C Robin Buell
    Citation: BMC Genomics 2011 12:302
    Content type: Research article Published on:

  8. Eucalyptus is an important genus in industrial plantations throughout the world and is grown for use as timber, pulp, paper and charcoal. Several breeding programmes have been launched worldwide to concomitantly ...

    Authors: Jean-Marc Gion, Audrey Carouché, Sylvie Deweer, Franck Bedon, Frédérique Pichavant, Jean-Paul Charpentier, Henri Baillères, Philippe Rozenberg, Victor Carocha, Nina Ognouabi, Daniel Verhaegen, Jacqueline Grima-Pettenati, Philippe Vigneron and Christophe Plomion
    Citation: BMC Genomics 2011 12:301
    Content type: Research article Published on:

  10. To identify the genes involved in the development of low temperature (LT) tolerance in hexaploid wheat, we examined the global changes in expression in response to cold of the 55,052 potentially unique genes r...

    Authors: Debbie Laudencia-Chingcuanco, Seedhabadee Ganeshan, Frank You, Brian Fowler, Ravindra Chibbar and Olin Anderson
    Citation: BMC Genomics 2011 12:299
    Content type: Research article Published on:

  12. Gene expression is known to vary extensively among tissues and between sexes. However, detailed descriptions of tissue- and sex-specific gene expression are available for only a few model organisms. A new stud...

    Authors: Rayna Stamboliyska and John Parsch
    Citation: BMC Genomics 2011 12:297
    Content type: Commentary Published on:

  13. The mosquito, Anopheles gambiae, is the primary vector of human malaria, a disease responsible for millions of deaths each year. To improve strategies for controlling transmission of the causative parasite, Plasm...

    Authors: Dean A Baker, Tony Nolan, Bettina Fischer, Alex Pinder, Andrea Crisanti and Steven Russell
    Citation: BMC Genomics 2011 12:296
    Content type: Research article Published on:

  14. Human killer immunoglobulin-like receptors (KIRs) play a critical role in governing the immune response to neoplastic and infectious disease. Rhesus macaques serve as important animal models for many human dis...

    Authors: Anna J Moreland, Lisbeth A Guethlein, R Keith Reeves, Karl W Broman, R Paul Johnson, Peter Parham, David H O'Connor and Benjamin N Bimber
    Citation: BMC Genomics 2011 12:295
    Content type: Research article Published on:

  15. Vibrio parahaemolyticus is a common cause of foodborne disease. Beginning in 1996, a more virulent strain having serotype O3:K6 caused major outbreaks in India and other parts of the world, resulting in the emerg...

    Authors: Yuansha Chen, O Colin Stine, Jonathan H Badger, Ana I Gil, G Balakrish Nair, Mitsuaki Nishibuchi and Derrick E Fouts
    Citation: BMC Genomics 2011 12:294
    Content type: Research article Published on:

  16. RNA-seq is revolutionizing the way we study transcriptomes. mRNA can be surveyed without prior knowledge of gene transcripts. Alternative splicing of transcript isoforms and the identification of previously un...

    Authors: Lauren M McIntyre, Kenneth K Lopiano, Alison M Morse, Victor Amin, Ann L Oberg, Linda J Young and Sergey V Nuzhdin
    Citation: BMC Genomics 2011 12:293
    Content type: Research article Published on:

  17. One of the key goals of oak genomics research is to identify genes of adaptive significance. This information may help to improve the conservation of adaptive genetic variation and the management of forests to...

    Authors: Patricia Faivre Rampant, Isabelle Lesur, Clément Boussardon, Frédérique Bitton, Marie-Laure Martin-Magniette, Catherine Bodénès, Grégoire Le Provost, Hélène Bergès, Sylvia Fluch, Antoine Kremer and Christophe Plomion
    Citation: BMC Genomics 2011 12:292
    Content type: Research article Published on:

  18. Acinetobacter baumannii has recently emerged as a significant global pathogen, with a surprisingly rapid acquisition of antibiotic resistance and spread within hospitals and health care institutions. This study e...

    Authors: Jason W Sahl, J Kristie Johnson, Anthony D Harris, Adam M Phillippy, William W Hsiao, Kerri A Thom and David A Rasko
    Citation: BMC Genomics 2011 12:291
    Content type: Research article Published on:

  20. Non-coding small RNAs play critical roles in various cellular processes in a wide spectrum of eukaryotic organisms. Their responses to abiotic stress have become a popular topic of economic and scientific impo...

    Authors: Lu Wang, Xiang Yu, Han Wang, Yi-Zhen Lu, Marjo de Ruiter, Marcel Prins and Yu-Ke He
    Citation: BMC Genomics 2011 12:289
    Content type: Research article Published on:

  21. Emerging knowledge of the impact of small RNAs as important cellular regulators has prompted an explosion of small transcriptome sequencing projects. Although significant progress has been made towards small R...

    Authors: Cristiano C Nunes, Malali Gowda, Joshua Sailsbery, Minfeng Xue, Feng Chen, Douglas E Brown, YeonYee Oh, Thomas K Mitchell and Ralph A Dean
    Citation: BMC Genomics 2011 12:288
    Content type: Research article Published on:

  22. Vinyl chloride is a widespread groundwater pollutant and Group 1 carcinogen. A previous comparative genomic analysis revealed that the vinyl chloride reductase operon, vcrABC, of Dehalococcoides sp. strain VS is ...

    Authors: Paul J McMurdie, Laura A Hug, Elizabeth A Edwards, Susan Holmes and Alfred M Spormann
    Citation: BMC Genomics 2011 12:287
    Content type: Research article Published on:

  24. The possibilities offered by next generation sequencing (NGS) platforms are revolutionizing biotechnological laboratories. Moreover, the combination of NGS sequencing and affordable high-throughput genotyping ...

    Authors: Jose M Blanca, Laura Pascual, Peio Ziarsolo, Fernando Nuez and Joaquin Cañizares
    Citation: BMC Genomics 2011 12:285
    Content type: Software Published on:

  26. The recent development of next generation sequencing technologies has made it possible to generate very large amounts of sequence data in species with little or no genome information. Combined with the large p...

    Authors: Anna W Santure, Jake Gratten, Jim A Mossman, Ben C Sheldon and Jon Slate
    Citation: BMC Genomics 2011 12:283
    Content type: Research article Published on:

  27. Because biotechnological uses of bacteriophage gene products as alternatives to conventional antibiotics will require a thorough understanding of their genomic context, we sequenced and analyzed the genomes of...

    Authors: Brian B Oakley, Eldin Talundzic, Cesar A Morales, Kelli L Hiett, Gregory R Siragusa, Nikolay V Volozhantsev and Bruce S Seal
    Citation: BMC Genomics 2011 12:282
    Content type: Research article Published on:

  28. Glucagon is an important hormone in the regulation of glucose homeostasis, particularly in the maintenance of euglycemia and prevention of hypoglycemia. In type 2 Diabetes Mellitus (T2DM), glucagon levels are ...

    Authors: Jianxin Yang, Margit L MacDougall, Michael T McDowell, Li Xi, Ru Wei, William J Zavadoski, Mark P Molloy, John D Baker, Max Kuhn, Over Cabrera and Judith L Treadway
    Citation: BMC Genomics 2011 12:281
    Content type: Research article Published on:

  29. DNA oligonucleotides are a very useful tool in biology. The best algorithms for designing good DNA oligonucleotides are filtering out unsuitable regions using a seeding approach. Determining the quality of the...

    Authors: Lucian Ilie, Silvana Ilie, Shima Khoshraftar and Anahita Mansouri Bigvand
    Citation: BMC Genomics 2011 12:280
    Content type: Research article Published on:

  30. Plant mitochondria contain a relatively large amount of genetic information, suggesting that their functional regulation may not be as straightforward as that of metazoans. We used a genomic tiling array to dr...

    Authors: Sota Fujii, Takushi Toda, Shunsuke Kikuchi, Ryutaro Suzuki, Koji Yokoyama, Hiroko Tsuchida, Kentaro Yano and Kinya Toriyama
    Citation: BMC Genomics 2011 12:279
    Content type: Research article Published on:

  31. In animals, signaling of Bone Morphogenetic Proteins (BMPs) is essential for dorsoventral (DV) patterning of the embryo, but how BMP signaling evolved with changes in embryonic DV differentiation is largely un...

    Authors: Steffen Lemke, Dionysios A Antonopoulos, Folker Meyer, Marc H Domanus and Urs Schmidt-Ott
    Citation: BMC Genomics 2011 12:278
    Content type: Research article Published on:

  32. In an important model for neuroscience, songbirds learn to discriminate songs they hear during tape-recorded playbacks, as demonstrated by song-specific habituation of both behavioral and neurogenomic response...

    Authors: Preethi H Gunaratne, Ya-Chi Lin, Ashley L Benham, Jenny Drnevich, Cristian Coarfa, Jayantha B Tennakoon, Chad J Creighton, Jong H Kim, Aleksandar Milosavljevic, Michael Watson, Sam Griffiths-Jones and David F Clayton
    Citation: BMC Genomics 2011 12:277
    Content type: Research article Published on:

  33. MicroRNAs (miRNAs) play important roles in embryonic stem cell (ESC) self-renewal and pluripotency. Numerous studies have revealed human and mouse ESC miRNA profiles. As a model for human-related study, the rh...

    Authors: Zhenghua Sun, Qiang Wei, Yanfeng Zhang, Xiechao He, Weizhi Ji and Bing Su
    Citation: BMC Genomics 2011 12:276
    Content type: Research article Published on:

  34. Entamoeba histolytica, an enteric protozoan parasite, causes amebic colitis and extra intestinal abscesses in millions of inhabitants of endemic areas. E. histolytica completely lacks glutathione metabolism but p...

    Authors: Afzal Husain, Ghulam Jeelani, Dan Sato and Tomoyoshi Nozaki
    Citation: BMC Genomics 2011 12:275
    Content type: Research article Published on:

  35. In livestock species like the chicken, high throughput single nucleotide polymorphism (SNP) genotyping assays are increasingly being used for whole genome association studies and as a tool in breeding (referre...

    Authors: Martien AM Groenen, Hendrik-Jan Megens, Yalda Zare, Wesley C Warren, LaDeana W Hillier, Richard PMA Crooijmans, Addie Vereijken, Ron Okimoto, William M Muir and Hans H Cheng
    Citation: BMC Genomics 2011 12:274
    Content type: Research article Published on:

  37. Despite the fact that the organization of the ciliate mitochondrial genome is exceptional, only few ciliate mitochondrial genomes have been sequenced until today. All ciliate mitochondrial genomes are linear. ...

    Authors: Dana Barth and Thomas U Berendonk
    Citation: BMC Genomics 2011 12:272
    Content type: Research article Published on:

  38. Chemosensory signal transduction guides the behavior of many insects, including Anopheles gambiae, the major vector for human malaria in sub-Saharan Africa. To better understand the molecular basis of mosquito ch...

    Authors: R Jason Pitts, David C Rinker, Patrick L Jones, Antonis Rokas and Laurence J Zwiebel
    Citation: BMC Genomics 2011 12:271
    Content type: Research article Published on:

  40. The identification and characterization of the transcriptional regulatory networks governing the physiology and adaptation of microbial cells is a key step in understanding their behaviour. One such wide-domai...

    Authors: Thomas Portnoy, Antoine Margeot, Rita Linke, Lea Atanasova, Erzsébet Fekete, Erzsébet Sándor, Lukas Hartl, Levente Karaffa, Irina S Druzhinina, Bernhard Seiboth, Stéphane Le Crom and Christian P Kubicek
    Citation: BMC Genomics 2011 12:269
    Content type: Research article Published on:

  41. A deficiency in phaseolin and phytohemagglutinin is associated with a near doubling of sulfur amino acid content in genetically related lines of common bean (Phaseolus vulgaris), particularly cysteine, elevated b...

    Authors: Fuqiang Yin, Agnieszka Pajak, Ralph Chapman, Andrew Sharpe, Shangzhi Huang and Frédéric Marsolais
    Citation: BMC Genomics 2011 12:268
    Content type: Research article Published on:

  42. Entamoeba histolytica and Entamoeba dispar are closely related protistan parasites but while E. histolytica can be invasive, E. dispar is completely non pathogenic. Transposable elements constitute a significant ...

    Authors: Vandana Kumari, Rahul Sharma, Vijay P Yadav, Abhishek K Gupta, Alok Bhattacharya and Sudha Bhattacharya
    Citation: BMC Genomics 2011 12:267
    Content type: Research article Published on:

  43. Cassava (Manihot esculenta Crantz) can produce cyanide, a toxic compound, without self-injury. That ability was called the cyanogenic potential (CN). This project aimed to identify quantitative trait loci (QTL) a...

    Authors: Sukhuman Whankaew, Supannee Poopear, Supanath Kanjanawattanawong, Sithichoke Tangphatsornruang, Opas Boonseng, David A Lightfoot and Kanokporn Triwitayakorn
    Citation: BMC Genomics 2011 12:266
    Content type: Research article Published on:

  44. Lentil (Lens culinaris Medik.) is a cool-season grain legume which provides a rich source of protein for human consumption. In terms of genomic resources, lentil is relatively underdeveloped, in comparison to oth...

    Authors: Sukhjiwan Kaur, Noel OI Cogan, Luke W Pembleton, Maiko Shinozuka, Keith W Savin, Michael Materne and John W Forster
    Citation: BMC Genomics 2011 12:265
    Content type: Research article Published on:

  45. Global transcriptional analysis of loblolly pine (Pinus taeda L.) is challenging due to limited molecular tools. PtGen2, a 26,496 feature cDNA microarray, was fabricated and used to assess drought-induced gene ex...

    Authors: W Walter Lorenz, Rob Alba, Yuan-Sheng Yu, John M Bordeaux, Marta Simões and Jeffrey FD Dean
    Citation: BMC Genomics 2011 12:264
    Content type: Research article Published on:

  46. Populations of Atlantic killifish (Fundulus heteroclitus) have evolved resistance to the embryotoxic effects of polychlorinated biphenyls (PCBs) and other halogenated and nonhalogenated aromatic hydrocarbons that...

    Authors: Marjorie F Oleksiak, Sibel I Karchner, Matthew J Jenny, Diana G Franks, David B Mark Welch and Mark E Hahn
    Citation: BMC Genomics 2011 12:263
    Content type: Research article Published on:

  47. Age-related gene expression patterns of Homo sapiens as well as of model organisms such as Mus musculus, Saccharomyces cerevisiae, Caenorhabditis elegans and Drosophila melanogaster are a basis for understanding ...

    Authors: Edith Hofer, Gerhard T Laschober, Matthias Hackl, Gerhard G Thallinger, Günter Lepperdinger, Johannes Grillari, Pidder Jansen-Dürr and Zlatko Trajanoski
    Citation: BMC Genomics 2011 12:262
    Content type: Database Published on:

  50. The total number of miRNA genes in a genome, expression of which is responsible for the miRNA repertoire of an organism, is not precisely known. Moreover, the question of how new miRNA genes arise during evolu...

    Authors: Stefan Lehnert, Vladimir Kapitonov, Pushpike J Thilakarathne and Frans C Schuit
    Citation: BMC Genomics 2011 12:257
    Content type: Research article Published on:

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