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  1. COG0523 proteins are, like the nickel chaperones of the UreG family, part of the G3E family of GTPases linking them to metallocenter biosynthesis. Even though the first COG0523-encoding gene, cobW, was identified...

    Authors: Crysten E Haas, Dmitry A Rodionov, Janette Kropat, Davin Malasarn, Sabeeha S Merchant and Valérie de Crécy-Lagard
    Citation: BMC Genomics 2009 10:470
    Content type: Research article Published on:

  2. Tardigrades represent an animal phylum with extraordinary resistance to environmental stress.

    Authors: Frank Förster, Chunguang Liang, Alexander Shkumatov, Daniela Beisser, Julia C Engelmann, Martina Schnölzer, Marcus Frohme, Tobias Müller, Ralph O Schill and Thomas Dandekar
    Citation: BMC Genomics 2009 10:469
    Content type: Research article Published on:

  3. Genome analysis of three Frankia sp. strains has revealed a high number of transposable elements in two of the strains. Twelve out of the 20 major families of bacterial Insertion Sequence (IS) elements are repres...

    Authors: Derek M Bickhart, Johann P Gogarten, Pascal Lapierre, Louis S Tisa, Philippe Normand and David R Benson
    Citation: BMC Genomics 2009 10:468
    Content type: Research article Published on:

  4. Cultivated tomato (Solanum lycopersicum L.) has narrow genetic diversity that makes it difficult to identify polymorphisms between elite germplasm. We explored array-based single feature polymorphism (SFP) discov...

    Authors: Sung-Chur Sim, Matthew D Robbins, Charles Chilcott, Tong Zhu and David M Francis
    Citation: BMC Genomics 2009 10:466
    Content type: Research article Published on:

  5. Glandular trichomes produce a wide variety of commercially important secondary metabolites in many plant species. The most prominent anti-malarial drug artemisinin, a sesquiterpene lactone, is produced in glan...

    Authors: Wei Wang, Yejun Wang, Qing Zhang, Yan Qi and Dianjing Guo
    Citation: BMC Genomics 2009 10:465
    Content type: Research article Published on:

  6. Schistosomes are trematode parasites of the phylum Platyhelminthes. They are considered the most important of the human helminth parasites in terms of morbidity and mortality. Draft genome sequences are now av...

    Authors: Claudia S Copeland, Manja Marz, Dominic Rose, Jana Hertel, Paul J Brindley, Clara Bermudez Santana, Stephanie Kehr, Camille Stephan-Otto Attolini and Peter F Stadler
    Citation: BMC Genomics 2009 10:464
    Content type: Research article Published on:

  7. Genome sequences can be conceptualized as arrangements of motifs or words. The frequencies and positional distributions of these words within particular non-coding genomic segments provide important insights i...

    Authors: Jens Lichtenberg, Alper Yilmaz, Joshua D Welch, Kyle Kurz, Xiaoyu Liang, Frank Drews, Klaus Ecker, Stephen S Lee, Matt Geisler, Erich Grotewold and Lonnie R Welch
    Citation: BMC Genomics 2009 10:463
    Content type: Research article Published on:

  8. Rainbow trout (Oncorhynchus mykiss) are the most-widely cultivated cold freshwater fish in the world and an important model species for many research areas. Coupling great interest in this species as a research m...

    Authors: Yniv Palti, Ming-Cheng Luo, Yuqin Hu, Carine Genet, Frank M You, Roger L Vallejo, Gary H Thorgaard, Paul A Wheeler and Caird E Rexroad III
    Citation: BMC Genomics 2009 10:462
    Content type: Research article Published on:

  9. The industrially important yeast Saccharomyces cerevisiae is able to grow both in the presence and absence of oxygen. However, the regulation of its metabolism in conditions of intermediate oxygen availability is...

    Authors: Eija Rintala, Mervi Toivari, Juha-Pekka Pitkänen, Marilyn G Wiebe, Laura Ruohonen and Merja Penttilä
    Citation: BMC Genomics 2009 10:461
    Content type: Research article Published on:

  10. Phytoplasmas are bacteria without cell walls from the class Mollicutes. They are obligate intracellular plant pathogens which cause diseases in hundreds of economically important plants including the grapevine (V...

    Authors: Matjaž Hren, Petra Nikolić, Ana Rotter, Andrej Blejec, Nancy Terrier, Maja Ravnikar, Marina Dermastia and Kristina Gruden
    Citation: BMC Genomics 2009 10:460
    Content type: Research article Published on:

  11. Pleiotropic Drug Resistant transporters (PDR) are members of the ATP-Binding Cassette (ABC) subfamily which export antifungals and other xenobiotics in fungi and plants. This subfamily of transmembrane transpo...

    Authors: Marie-Line Seret, Julie F Diffels, André Goffeau and Philippe V Baret
    Citation: BMC Genomics 2009 10:459
    Content type: Research article Published on:

  12. Triticum monococcum (2n = 2x = 14) is an ancient diploid wheat with many useful traits and is used as a model for wheat gene discovery. DArT (D iversity Ar rays T echnology) employs a hybridisation-based approach...

    Authors: Hai-Chun Jing, Carlos Bayon, Kostya Kanyuka, Simon Berry, Peter Wenzl, Eric Huttner, Andrzej Kilian and Kim E Hammond-Kosack
    Citation: BMC Genomics 2009 10:458
    Content type: Research article Published on:

  13. Cotton (Gossypium hirsutum) is one of the most important economic crops and provides excellent fibers for textile manufacture. In addition to its industrial and agricultural importance, the fiber cell (plant tric...

    Authors: Pieter Bas Kwak, Qin Qin Wang, Xu Sheng Chen, Cheng Xiang Qiu and Zhi Min Yang
    Citation: BMC Genomics 2009 10:457
    Content type: Research article Published on:

  14. Aphid adaptation to harsh winter conditions is illustrated by an alternation of their reproductive mode. Aphids detect photoperiod shortening by sensing the length of the night and switch from viviparous parth...

    Authors: G Le Trionnaire, F Francis, S Jaubert-Possamai, J Bonhomme, E De Pauw, J-P Gauthier, E Haubruge, F Legeai, N Prunier-Leterme, J-C Simon, S Tanguy and D Tagu
    Citation: BMC Genomics 2009 10:456
    Content type: Research article Published on:

  15. MicroRNAs (miRNAs) are expressed by a wide range of eukaryotic organisms, and function in diverse biological processes. Numerous miRNAs have been identified in Bombyx mori, but the temporal expression profiles of...

    Authors: Shiping Liu, Liang Zhang, Qibin Li, Ping Zhao, Jun Duan, Daojun Cheng, Zhonghuai Xiang and Qingyou Xia
    Citation: BMC Genomics 2009 10:455
    Content type: Research article Published on:

    The Retraction Note to this article has been published in BMC Genomics 2011 12:284

  16. The globe artichoke (Cynara cardunculus var. scolymus L.) is a significant crop in the Mediterranean basin. Despite its commercial importance and its both dietary and pharmaceutical value, knowledge of its geneti...

    Authors: Davide Scaglione, Alberto Acquadro, Ezio Portis, Christopher A Taylor, Sergio Lanteri and Steven J Knapp
    Citation: BMC Genomics 2009 10:454
    Content type: Research article Published on:

  18. There is little information about the DNA sequence variation within and between closely related plant species. The combination of re-sequencing technologies, large-scale DNA pools and availability of reference...

    Authors: Carsten Külheim, Suat Hui Yeoh, Jens Maintz, William J Foley and Gavin F Moran
    Citation: BMC Genomics 2009 10:452
    Content type: Research article Published on:

  19. The freshwater snail Lymnaea stagnalis (L. stagnalis) has served as a successful model for studies in the field of Neuroscience. However, a serious drawback in the molecular analysis of the nervous system of L. s...

    Authors: Z-P Feng, Z Zhang, RE van Kesteren, VA Straub, P van Nierop, K Jin, N Nejatbakhsh, JI Goldberg, GE Spencer, MS Yeoman, W Wildering, JR Coorssen, RP Croll, LT Buck, NI Syed and AB Smit
    Citation: BMC Genomics 2009 10:451
    Content type: Research article Published on:

  20. Gluconacetobacter diazotrophicus Pal5 is an endophytic diazotrophic bacterium that lives in association with sugarcane plants. It has important biotechnological features such as nitrogen fixation, plant growth pr...

    Authors: Marcelo Bertalan, Rodolpho Albano, Vânia de Pádua, Luc Rouws, Cristian Rojas, Adriana Hemerly, Kátia Teixeira, Stefan Schwab, Jean Araujo, André Oliveira, Leonardo França, Viviane Magalhães, Sylvia Alquéres, Alexander Cardoso, Welington Almeida, Marcio Martins Loureiro…
    Citation: BMC Genomics 2009 10:450
    Content type: Research article Published on:

  21. MicroRNAs (miRNAs) are endogenous small RNAs having large-scale regulatory effects on plant development and stress responses. Extensive studies of miRNAs have only been performed in a few model plants. Althoug...

    Authors: Jingyu Zhang, Yunyuan Xu, Qing Huan and Kang Chong
    Citation: BMC Genomics 2009 10:449
    Content type: Research article Published on:

  22. Systemic administration of β-adrenoceptor (β-AR) agonists has been found to induce skeletal muscle hypertrophy and significant metabolic changes. In the context of energy homeostasis, the importance of β-AR si...

    Authors: Michael A Pearen, James G Ryall, Gordon S Lynch and George EO Muscat
    Citation: BMC Genomics 2009 10:448
    Content type: Research article Published on:

  23. Rhodoferax ferrireducens is a metabolically versatile, Fe(III)-reducing, subsurface microorganism that is likely to play an important role in the carbon and metal cycles in the subsurface. It also has the unique ...

    Authors: Carla Risso, Jun Sun, Kai Zhuang, Radhakrishnan Mahadevan, Robert DeBoy, Wael Ismail, Susmita Shrivastava, Heather Huot, Sagar Kothari, Sean Daugherty, Olivia Bui, Christophe H Schilling, Derek R Lovley and Barbara A Methé
    Citation: BMC Genomics 2009 10:447
    Content type: Research article Published on:

  24. The detection of odorants is mediated by olfactory receptors (ORs). ORs are G-protein coupled receptors that form a remarkably large protein superfamily in vertebrate genomes. We used data that became availabl...

    Authors: Silke S Steiger, Vladimir Y Kuryshev, Marcus C Stensmyr, Bart Kempenaers and Jakob C Mueller
    Citation: BMC Genomics 2009 10:446
    Content type: Research article Published on:

  25. Subtelomeric RIFIN genes constitute the most abundant multigene family in Plasmodium falciparum. RIFIN products are targets for the human immune response and contribute to the antigenic variability of the parasit...

    Authors: Emanuele Bultrini, Kevin Brick, Srayanta Mukherjee, Yang Zhang, Francesco Silvestrini, Pietro Alano and Elisabetta Pizzi
    Citation: BMC Genomics 2009 10:445
    Content type: Research article Published on:

  26. Mastitis is the most important disease in dairy cows and it causes significant lost of profit to producers. Identification of the genes, and their variants, involved in innate immune responses is essential for...

    Authors: Karin Alain, Niel A Karrow, Catherine Thibault, Jessika St-Pierre, Martin Lessard and Nathalie Bissonnette
    Citation: BMC Genomics 2009 10:444
    Content type: Research article Published on:

  27. MicroRNAs are the major class of gene-regulating molecules playing diverse roles through sequence complementarity to target mRNAs at post-transcriptional level. Tightly regulated expression and interaction of ...

    Authors: Md Munir Hossain, Nasser Ghanem, Michael Hoelker, Franca Rings, Chirawath Phatsara, Ernst Tholen, Karl Schellander and Dawit Tesfaye
    Citation: BMC Genomics 2009 10:443
    Content type: Research article Published on:

  28. Diamond-Blackfan anaemia (DBA) is a rare inherited red cell hypoplasia characterised by a defect in the maturation of erythroid progenitors and in some cases associated with malformations. Patients have an inc...

    Authors: Federica Avondo, Paola Roncaglia, Nicoletta Crescenzio, Helena Krmac, Emanuela Garelli, Marta Armiraglio, Carlotta Castagnoli, Maria Francesca Campagnoli, Ugo Ramenghi, Stefano Gustincich, Claudio Santoro and Irma Dianzani
    Citation: BMC Genomics 2009 10:442
    Content type: Research article Published on:

  29. Burkholderia cenocepacia belongs to a group of closely related organisms called the B. cepacia complex (Bcc) which are important opportunistic human pathogens. B. cenocepacia utilizes a mechanism of cell-cell com...

    Authors: Eoin P O'Grady, Duber F Viteri, Rebecca J Malott and Pamela A Sokol
    Citation: BMC Genomics 2009 10:441
    Content type: Research article Published on:

  30. Many genes oscillate in their level of expression through the cell division cycle. Previous studies have identified such genes by applying Fourier analysis to cell cycle time course experiments. Typically, suc...

    Authors: Saumyadipta Pyne, Roee Gutman, Chang Sik Kim and Bruce Futcher
    Citation: BMC Genomics 2009 10:440
    Content type: Research article Published on:

  31. With the increasing number of expression profiling technologies, researchers today are confronted with choosing the technology that has sufficient power with minimal sample size, in order to reduce cost and ti...

    Authors: M van Iterson, PAC 't Hoen, P Pedotti, GJEJ Hooiveld, JT den Dunnen, GJB van Ommen, JM Boer and RX Menezes
    Citation: BMC Genomics 2009 10:439
    Content type: Methodology article Published on:

  32. Oceans cover more than 70% of the earth's surface and are critical for the homeostasis of the environment. Among the components of the ocean ecosystem, zooplankton play vital roles in energy and matter transfe...

    Authors: Ryuji J Machida, Yasuyuki Hashiguchi, Mutsumi Nishida and Shuhei Nishida
    Citation: BMC Genomics 2009 10:438
    Content type: Research article Published on:

  33. Peptidase family A1, to which pepsin belongs, had been assumed to be restricted to eukaryotes. The tertiary structure of pepsin shows two lobes with similar folds and it has been suggested that the gene has ar...

    Authors: Neil D Rawlings and Alex Bateman
    Citation: BMC Genomics 2009 10:437
    Content type: Research article Published on:

  34. 'Systems-wide' approaches such as microarray RNA-profiling are ideally suited to the study of the complex overlapping responses of plants to biotic and abiotic stresses. However, commercial microarrays are onl...

    Authors: Mark W Davey, Neil S Graham, Bartel Vanholme, Rony Swennen, Sean T May and Johan Keulemans
    Citation: BMC Genomics 2009 10:436
    Content type: Research article Published on:

  36. The Senegalese sole (Solea senegalensis) is a marine flatfish of increasing commercial interest. However, the reproduction of this species in captivity is not yet controlled mainly because of the poor knowledge o...

    Authors: Angèle Tingaud-Sequeira, François Chauvigné, Juanjo Lozano, María J Agulleiro, Esther Asensio and Joan Cerdà
    Citation: BMC Genomics 2009 10:434
    Content type: Research article Published on:

  37. Photorhabdus and Xenorhabdus are Gram-negative, phylogenetically related, enterobacteria, forming mutualism with the entomopathogenic nematodes Heterorhabditis and Steinernema, respectively. The mutualistic bacte...

    Authors: Ruisheng An, Srinand Sreevatsan and Parwinder S Grewal
    Citation: BMC Genomics 2009 10:433
    Content type: Research article Published on:

  38. In view of the immense value of Brassica rapa in the fields of agriculture and molecular biology, the multinational Brassica rapa Genome Sequencing Project (BrGSP) was launched in 2003 by five countries. The deve...

    Authors: HyeRan Kim, Su Ryun Choi, Jina Bae, Chang Pyo Hong, Seo Yeon Lee, Md Jamil Hossain, Dan Van Nguyen, Mina Jin, Beom-Seok Park, Jea-Wook Bang, Ian Bancroft and Yong Pyo Lim
    Citation: BMC Genomics 2009 10:432
    Content type: Research article Published on:

  40. Difference in adaptability responses to stress has been observed amongst bird species, strains, and individuals. Components of the HPA axis, one of the internal systems involved in homeostasis re-establishment...

    Authors: Clara Bureau, Christelle Hennequet-Antier, Michel Couty and Daniel Guémené
    Citation: BMC Genomics 2009 10:430
    Content type: Research article Published on:

  41. Understanding how pathogens respond to antimicrobial peptides, and how this compares to currently available antibiotics, is crucial for optimizing antimicrobial therapy. Staphylococcus aureus has several known re...

    Authors: Milla Pietiäinen, Patrice François, Hanne-Leena Hyyryläinen, Manuela Tangomo, Vera Sass, Hans-Georg Sahl, Jacques Schrenzel and Vesa P Kontinen
    Citation: BMC Genomics 2009 10:429
    Content type: Research article Published on:

  42. Interpretation of ever-increasing raw sequence information generated by modern genome sequencing technologies faces multiple challenges, such as gene function analysis and genome annotation. Indeed, nearly 40%...

    Authors: M Carmen Marques, Hugo Alonso-Cantabrana, Javier Forment, Raquel Arribas, Santiago Alamar, Vicente Conejero and Miguel A Perez-Amador
    Citation: BMC Genomics 2009 10:428
    Content type: Research article Published on:

  43. Trypanosomes undergo extensive developmental changes during their complex life cycle. Crucial among these is the transition between slender and stumpy bloodstream forms and, thereafter, the differentiation fro...

    Authors: Sarah Kabani, Katelyn Fenn, Alan Ross, Al Ivens, Terry K Smith, Peter Ghazal and Keith Matthews
    Citation: BMC Genomics 2009 10:427
    Content type: Research article Published on:

  44. The use of microarray technology for describing changes in mRNA expression to address ecological and evolutionary questions is becoming increasingly popular. Since three-spine stickleback are an important ecol...

    Authors: Erica H Leder, Juha Merilä and Craig R Primmer
    Citation: BMC Genomics 2009 10:426
    Content type: Methodology article Published on:

  45. Lactobacillus plantarum is a normal, potentially probiotic, inhabitant of the human gastrointestinal (GI) tract. The bacterium has great potential as food-grade cell factory and for in situ delivery of biomolecul...

    Authors: Geir Mathiesen, Anita Sveen, May Bente Brurberg, Lasse Fredriksen, Lars Axelsson and Vincent GH Eijsink
    Citation: BMC Genomics 2009 10:425
    Content type: Research article Published on:

  46. Proliferation and tumor differentiation captured by the genomic grade index (GGI) are important prognostic indicators in breast cancer (BC) especially for the estrogen receptor positive (ER+) disease. The aims...

    Authors: Jérôme Toussaint, Anieta M Sieuwerts, Benjamin Haibe-Kains, Christine Desmedt, Ghizlane Rouas, Adrian L Harris, Denis Larsimont, Martine Piccart, John A Foekens, Virginie Durbecq and Christos Sotiriou
    Citation: BMC Genomics 2009 10:424
    Content type: Methodology article Published on:

  47. Cold storage is used to inhibit peach fruit ripening during shipment to distant markets. However, this cold storage can negatively affect the quality of the fruit when it is ripened, resulting in disorders suc...

    Authors: Paula Vizoso, Lee A Meisel, Andrés Tittarelli, Mariano Latorre, Juan Saba, Rodrigo Caroca, Jonathan Maldonado, Veronica Cambiazo, Reinaldo Campos-Vargas, Mauricio Gonzalez, Ariel Orellana and Herman Silva
    Citation: BMC Genomics 2009 10:423
    Content type: Research article Published on:

  48. Allele-specific expression (ASE) assays can be used to identify cis, trans, and cis-by-trans regulatory variation. Understanding the source of expression variation has important implications for disease susceptib...

    Authors: Bradley J Main, Ryan D Bickel, Lauren M McIntyre, Rita M Graze, Peter P Calabrese and Sergey V Nuzhdin
    Citation: BMC Genomics 2009 10:422
    Content type: Methodology article Published on:

  49. Information on the occurrence of zinc finger protein motifs in genomes is crucial to the developing field of molecular genome engineering. The knowledge of their target DNA-binding sequences is vital to develo...

    Authors: Mannu Jayakanthan, Jayaraman Muthukumaran, Sanniyasi Chandrasekar, Konika Chawla, Ankita Punetha and Durai Sundar
    Citation: BMC Genomics 2009 10:421
    Content type: Database Published on:

  50. Alterations in brain-derived neurotrophic factor (BDNF) gene expression contribute to serious pathologies such as depression, epilepsy, cancer, Alzheimer's, Huntington and Parkinson's disease. Therefore, explorin...

    Authors: Tamara Aid-Pavlidis, Pavlos Pavlidis and Tõnis Timmusk
    Citation: BMC Genomics 2009 10:420
    Content type: Research article Published on:

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BMC Genomics

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