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  1. Powdery mildew and rust fungi are widespread, serious pathogens that depend on developing haustoria in the living plant cells. Haustoria are separated from the host cytoplasm by a plant cell-derived extrahaust...

    Authors: Dale Godfrey, Henrik Böhlenius, Carsten Pedersen, Ziguo Zhang, Jeppe Emmersen and Hans Thordal-Christensen
    Citation: BMC Genomics 2010 11:317
  2. In bacteria, small non-coding RNAs (sRNAs) have been recognized as important regulators of various cellular processes. Approximately 200 bacterial sRNAs in total have been reported. However, very few sRNAs hav...

    Authors: Rui-Ping Jiang, Dong-Jie Tang, Xiao-Lin Chen, Yong-Qiang He, Jia-Xun Feng, Bo-Le Jiang, Guang-Tao Lu, Min Lin and Ji-Liang Tang
    Citation: BMC Genomics 2010 11:316
  3. High-density oligonucleotide arrays are effective tools for genotyping numerous loci simultaneously. In small genome species (genome size: < ~300 Mb), whole-genome DNA hybridization to expression arrays has be...

    Authors: Youko Horiuchi, Yoshiaki Harushima, Hironori Fujisawa, Takako Mochizuki, Masanori Kawakita, Takayuki Sakaguchi and Nori Kurata
    Citation: BMC Genomics 2010 11:315
  4. One of the key characters of social insects is the division of labor, in which different tasks are allocated to various castes. In termites, one of the representative groups of social insects, morphological di...

    Authors: Yuki Ishikawa, Yasukazu Okada, Asano Ishikawa, Hitoshi Miyakawa, Shigeyuki Koshikawa and Toru Miura
    Citation: BMC Genomics 2010 11:314
  5. Anopheles gambiae has been shown to change its global gene expression patterns upon Plasmodium infection. While many alterations are directly related to the mosquito's innate immune response, parasite invasion is...

    Authors: Rute C Félix, Pie Müller, Vera Ribeiro, Hilary Ranson and Henrique Silveira
    Citation: BMC Genomics 2010 11:312
  6. Pseudomonas putida is a model organism for bioremediation because of its remarkable metabolic versatility, extensive biodegradative functions, and ubiquity in contaminated soil environments. To further the unders...

    Authors: Dorothea K Thompson, Karuna Chourey, Gene S Wickham, Stephanie B Thieman, Nathan C VerBerkmoes, Bing Zhang, Andrea T McCarthy, Matt A Rudisill, Manesh Shah and Robert L Hettich
    Citation: BMC Genomics 2010 11:311
  7. Several recent studies have demonstrated the use of Roche 454 sequencing technology for de novo transcriptome analysis. Low error rates and high coverage also allow for effective SNP discovery and genetic diversi...

    Authors: Shawn T O'Neil, Jason DK Dzurisin, Rory D Carmichael, Neil F Lobo, Scott J Emrich and Jessica J Hellmann
    Citation: BMC Genomics 2010 11:310
  8. The third, or wobble, position in a codon provides a high degree of possible degeneracy and is an elegant fault-tolerance mechanism. Nucleotide biases between organisms at the wobble position have been documen...

    Authors: Tatiana V Tatarinova, Nickolai N Alexandrov, John B Bouck and Kenneth A Feldmann
    Citation: BMC Genomics 2010 11:308
  9. Hookworm infection is one of the most important neglected diseases in developing countries, with approximately 1 billion people infected worldwide. To better understand hookworm biology and nematode parasitism...

    Authors: Zhengyuan Wang, Sahar Abubucker, John Martin, Richard K Wilson, John Hawdon and Makedonka Mitreva
    Citation: BMC Genomics 2010 11:307
  10. The molecular mechanisms leading to a fully differentiated thyrocite are still object of intense study even if it is well known that thyroglobulin, thyroperoxidase, NIS and TSHr are the marker genes of thyroid...

    Authors: Roberto Nitsch, Valeria Di Dato, Alessandra di Gennaro, Tiziana de Cristofaro, Serena Abbondante, Mario De Felice, Mariastella Zannini and Roberto Di Lauro
    Citation: BMC Genomics 2010 11:306
  11. The small brown planthopper (Laodelphax striatellus) is an important agricultural pest that not only damages rice plants by sap-sucking, but also acts as a vector that transmits rice stripe virus (RSV), which can...

    Authors: Fujie Zhang, Hongyan Guo, Huajun Zheng, Tong Zhou, Yijun Zhou, Shengyue Wang, Rongxiang Fang, Wei Qian and Xiaoying Chen
    Citation: BMC Genomics 2010 11:303
  12. The high-throughput anchoring of genetic markers into contigs is required for many ongoing physical mapping projects. Multidimentional BAC pooling strategies for PCR-based screening of large insert libraries i...

    Authors: Giang TH Vu, Peter DS Caligari and Mike J Wilkinson
    Citation: BMC Genomics 2010 11:301
  13. Brucellosis is a major bacterial zoonosis affecting domestic livestock and wild mammals, as well as humans around the globe. While conducting proteomics studies to better understand Brucella abortus virulence, we...

    Authors: Julie Lamontagne, Maxime Béland, Anik Forest, Alexandra Côté-Martin, Najib Nassif, Fadi Tomaki, Ignacio Moriyón, Edgardo Moreno and Eustache Paramithiotis
    Citation: BMC Genomics 2010 11:300
  14. Anaerobic ammonium-oxidizing (anammox) bacteria perform a key step in global nitrogen cycling. These bacteria make use of an organelle to oxidize ammonia anaerobically to nitrogen (N2) and so contribute ~50% of t...

    Authors: Marnix H Medema, Miaomiao Zhou, Sacha AFT van Hijum, Jolein Gloerich, Hans JCT Wessels, Roland J Siezen and Marc Strous
    Citation: BMC Genomics 2010 11:299
  15. Cancer genomes display characteristic patterns of chromosomal imbalances, often with diagnostic and prognostic relevance. Therefore assays for genome-wide copy number screening and simultaneous detection of co...

    Authors: Candy Kumps, Nadine Van Roy, Lien Heyrman, Dirk Goossens, Jurgen Del-Favero, Rosa Noguera, Jo Vandesompele, Frank Speleman and Katleen De Preter
    Citation: BMC Genomics 2010 11:298
  16. Obesity and phenotypic traits associated with this condition exhibit significant heritability in natural populations of most organisms. While a number of genes and genetic pathways have been implicated to play...

    Authors: Patricia Jumbo-Lucioni, Julien F Ayroles, Michelle Moses Chambers, Katherine W Jordan, Jeff Leips, Trudy FC Mackay and Maria De Luca
    Citation: BMC Genomics 2010 11:297
  17. High-throughput sequencing technologies offer new perspectives for biomedical, agronomical and evolutionary research. Promising progresses now concern the application of these technologies to large-scale studi...

    Authors: Maxime Galan, Emmanuel Guivier, Gilles Caraux, Nathalie Charbonnel and Jean-François Cosson
    Citation: BMC Genomics 2010 11:296
  18. The number of databases in molecular biological fields has rapidly increased to provide a large-scale resource. Though valuable information is available, data can be difficult to access, compare and integrate ...

    Authors: Giulietta M Spudich and Xosé M Fernández-Suárez
    Citation: BMC Genomics 2010 11:295
  19. Gene expression arrays are valuable and widely used tools for biomedical research. Today's commercial arrays attempt to measure the expression level of all of the genes in the genome. Effectively translating t...

    Authors: Benoît Ballester, Nathan Johnson, Glenn Proctor and Paul Flicek
    Citation: BMC Genomics 2010 11:294
  20. The maturing field of genomics is rapidly increasing the number of sequenced genomes and producing more information from those previously sequenced. Much of this additional information is variation data derive...

    Authors: Yuan Chen, Fiona Cunningham, Daniel Rios, William M McLaren, James Smith, Bethan Pritchard, Giulietta M Spudich, Simon Brent, Eugene Kulesha, Pablo Marin-Garcia, Damian Smedley, Ewan Birney and Paul Flicek
    Citation: BMC Genomics 2010 11:293
  21. Designing sustainable animal production systems that better balance productivity and resistance to disease is a major concern. In order to address questions related to immunity and resistance to disease in pig...

    Authors: Yu Gao, Laurence Flori, Jérome Lecardonnel, Diane Esquerré, Zhi-Liang Hu, Angélique Teillaud, Gaëtan Lemonnier, Francois Lefèvre, Isabelle P Oswald and Claire Rogel-Gaillard
    Citation: BMC Genomics 2010 11:292
  22. Osmotic stress is caused by sudden changes in the impermeable solute concentration around a cell, which induces instantaneous water flow in or out of the cell to balance the concentration. Very little is known...

    Authors: Xizeng Mao, Victor Olman, Rhona Stuart, Ian T Paulsen, Brian Palenik and Ying Xu
    Citation: BMC Genomics 2010 11:291
  23. Candida species are the most common cause of opportunistic fungal infection worldwide. Recent sequencing efforts have provided a wealth of Candida genomic data. We have developed the Candida Gene Order Browser (C...

    Authors: David A Fitzpatrick, Peadar O'Gaora, Kevin P Byrne and Geraldine Butler
    Citation: BMC Genomics 2010 11:290
  24. Computational methods for identifying selenoproteins have been developed rapidly in recent years. However, it is still difficult to identify the open reading frame (ORF) of eukaryotic selenoprotein gene, becau...

    Authors: Liang Jiang, Qiong Liu and Jiazuan Ni
    Citation: BMC Genomics 2010 11:289
  25. MicroRNAs are a class of small non-coding RNAs that regulate mRNA expression at the post - transcriptional level and thereby many fundamental biological processes. A number of methods, such as multiplex polyme...

    Authors: Candida Vaz, Hafiz M Ahmad, Pratibha Sharma, Rashi Gupta, Lalit Kumar, Ritu Kulshreshtha and Alok Bhattacharya
    Citation: BMC Genomics 2010 11:288
  26. AFLP markers are widely used in evolutionary genetics and ecology. However the frequent occurrence of non-homologous co-migrating fragments (homoplasy) both at the intra- and inter-individual levels in AFLP da...

    Authors: Margot Paris, Benjamin Bonnes, Gentile Francesco Ficetola, Bénédicte N Poncet and Laurence Després
    Citation: BMC Genomics 2010 11:287
  27. The central metabolic pathway of glycolysis converts glucose to pyruvate, with the net production of 2 ATP and 2 NADH per glucose molecule. Each of the ten reactions in this pathway is typically catalyzed by m...

    Authors: Soumya A Vemuganti, Fernando Pardo-Manuel de Villena and Deborah A O'Brien
    Citation: BMC Genomics 2010 11:285
  28. Copy number variations (CNVs), which represent a significant source of genetic diversity in mammals, have been shown to be associated with phenotypes of clinical relevance and to be causative of disease. Notwi...

    Authors: João Fadista, Bo Thomsen, Lars-Erik Holm and Christian Bendixen
    Citation: BMC Genomics 2010 11:284
  29. CCCH type zinc finger proteins are RNA binding proteins with regulatory functions at all stages of mRNA metabolism. The best-characterized member, tritetraproline (TTP), binds to AU rich elements in 3' UTRs of...

    Authors: Susanne Kramer, Nicola C Kimblin and Mark Carrington
    Citation: BMC Genomics 2010 11:283
  30. RNA-Seq exploits the rapid generation of gigabases of sequence data by Massively Parallel Nucleotide Sequencing, allowing for the mapping and digital quantification of whole transcriptomes. Whilst previous com...

    Authors: James R Bradford, Yvonne Hey, Tim Yates, Yaoyong Li, Stuart D Pepper and Crispin J Miller
    Citation: BMC Genomics 2010 11:282
  31. Post-transcriptional regulation in eukaryotes can be operated through microRNA (miRNAs) mediated gene silencing. MiRNAs are small (18-25 nucleotides) non-coding RNAs that play crucial role in regulation of gen...

    Authors: Fabrice Legeai, Guillaume Rizk, Thomas Walsh, Owain Edwards, Karl Gordon, Dominique Lavenier, Nathalie Leterme, Agnès Méreau, Jacques Nicolas, Denis Tagu and Stéphanie Jaubert-Possamai
    Citation: BMC Genomics 2010 11:281
  32. In tropical countries, losses caused by bovine tick Rhipicephalus (Boophilus) microplus infestation have a tremendous economic impact on cattle production systems. Genetic variation between Bos taurus and Bos ind...

    Authors: Marco Antonio Machado, Ana Luisa S Azevedo, Roberto L Teodoro, Maria A Pires, Maria Gabriela CD Peixoto, Célio de Freitas, Márcia Cristina A Prata, John Furlong, Marcos Vinicius GB da Silva, Simone EF Guimarães, Luciana CA Regitano, Luiz L Coutinho, Gustavo Gasparin and Rui S Verneque
    Citation: BMC Genomics 2010 11:280
  33. Salmonids are one of the most intensely studied fish, in part due to their economic and environmental importance, and in part due to a recent whole genome duplication in the common ancestor of salmonids. This ...

    Authors: Jong S Leong, Stuart G Jantzen, Kristian R von Schalburg, Glenn A Cooper, Amber M Messmer, Nancy Y Liao, Sarah Munro, Richard Moore, Robert A Holt, Steven JM Jones, William S Davidson and Ben F Koop
    Citation: BMC Genomics 2010 11:279
  34. Large collections of expressed sequence tags (ESTs) are a fundamental resource for analysis of gene expression and annotation of genome sequences. We generated 116,899 ESTs from 17 normalized and two non-norma...

    Authors: Bo-Young Lee, Aimee E Howe, Matthew A Conte, Helena D'Cotta, Elodie Pepey, Jean-Francois Baroiller, Federica di Palma, Karen L Carleton and Thomas D Kocher
    Citation: BMC Genomics 2010 11:278
  35. While more than 700 microRNAs (miRNAs) are known in human, a comparably low number has been identified in swine. Because of the close phylogenetic distance to humans, pigs serve as a suitable model for studyin...

    Authors: Soroush Sharbati, Marc R Friedländer, Jutta Sharbati, Lena Hoeke, Wei Chen, Andreas Keller, Peer F Stähler, Nikolaus Rajewsky and Ralf Einspanier
    Citation: BMC Genomics 2010 11:275
  36. High-throughput microarray experiments now permit researchers to screen thousands of genes simultaneously and determine the different expression levels of genes in normal or cancerous tissues. In this paper, w...

    Authors: Austin H Chen, Yin-Wu Tsau and Ching-Heng Lin
    Citation: BMC Genomics 2010 11:274
  37. The use of gene expression profiling for the classification of human cancer tumors has been widely investigated. Previous studies were successful in distinguishing several tumor types in binary problems. As th...

    Authors: Wensheng Zhang, Kelly Robbins, Yupeng Wang, Keith Bertrand and Romdhane Rekaya
    Citation: BMC Genomics 2010 11:273
  38. Shigella flexneri inhibits apoptosis in infected epithelial cells. In order to understand the pro-survival effects induced by the bacteria, we utilized apoptosis-specific microarrays to analyze the changes in euk...

    Authors: Christina S Faherty, D Scott Merrell, Cristina Semino-Mora, Andre Dubois, Aishwarya V Ramaswamy and Anthony T Maurelli
    Citation: BMC Genomics 2010 11:272
  39. Genome-wide analysis of sequence divergence among species offers profound insights into the evolutionary processes that shape lineages. When full-genome sequencing is not feasible for a broad comparative study...

    Authors: Suzy CP Renn, Heather E Machado, Albyn Jones, Kosha Soneji, Rob J Kulathinal and Hans A Hofmann
    Citation: BMC Genomics 2010 11:271
  40. Surprisingly little is known about the organization and distribution of tRNA genes and tRNA-related sequences on a genome-wide scale. While tRNA gene complements are usually reported in passing as part of geno...

    Authors: Clara Bermudez-Santana, Camille Stephan-Otto Attolini, Toralf Kirsten, Jan Engelhardt, Sonja J Prohaska, Stephan Steigele and Peter F Stadler
    Citation: BMC Genomics 2010 11:270
  41. Genetic maps constitute the basis of breeding programs for many agricultural organisms. The creation of these maps is dependent on marker discovery. Melon, among other crops, is still lagging in genomic resour...

    Authors: Ron Ophir, Ravit Eshed, Rotem Harel-Beja, Galil Tzuri, Vitaly Portnoy, Yoseph Burger, Shai Uliel, Nurit Katzir and Amir Sherman
    Citation: BMC Genomics 2010 11:269
  42. Glycyrrhiza uralensis is one of the most popular medicinal plants in the world and is also widely used in the flavoring of food and tobacco. Due to limited genomic and transcriptomic data, the biosynthetic pathwa...

    Authors: Ying Li, Hong-Mei Luo, Chao Sun, Jing-Yuan Song, Yong-Zhen Sun, Qiong Wu, Ning Wang, Hui Yao, André Steinmetz and Shi-Lin Chen
    Citation: BMC Genomics 2010 11:268

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