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  1. Tef (Eragrostis tef), an indigenous cereal critical to food security in the Horn of Africa, is rich in minerals and protein, resistant to many biotic and abiotic stresses and safe for diabetics as well as suffere...

    Authors: Gina Cannarozzi, Sonia Plaza-Wüthrich, Korinna Esfeld, Stéphanie Larti, Yi Song Wilson, Dejene Girma, Edouard de Castro, Solomon Chanyalew, Regula Blösch, Laurent Farinelli, Eric Lyons, Michel Schneider, Laurent Falquet, Cris Kuhlemeier, Kebebew Assefa and Zerihun Tadele
    Citation: BMC Genomics 2014 15:581
    Content type: Research article Published on:

  2. Massive mortality outbreaks affecting Pacific oyster (Crassostrea gigas) spat in various countries have been associated with the detection of a herpesvirus called ostreid herpesvirus type 1 (OsHV-1). However, few...

    Authors: Amélie Segarra, Florian Mauduit, Nicole Faury, Suzanne Trancart, Lionel Dégremont, Delphine Tourbiez, Philippe Haffner, Valérie Barbosa-Solomieu, Jean-François Pépin, Marie-Agnès Travers and Tristan Renault
    Citation: BMC Genomics 2014 15:580
    Content type: Research article Published on:

  3. Chromosomal breakage followed by faulty DNA repair leads to gene amplifications and deletions in cancers. However, the mere assessment of the extent of genomic changes, amplifications and deletions may reduce ...

    Authors: Ewa Przybytkowski, Elizabeth Lenkiewicz, Michael T Barrett, Kathleen Klein, Sheida Nabavi, Celia MT Greenwood and Mark Basik
    Citation: BMC Genomics 2014 15:579
    Content type: Research article Published on:

  4. Agarwood is derived from Aquilaria trees, the trade of which has come under strict control with a listing in Appendix II of the Convention on International Trade in Endangered Species of Wild Fauna and Flora. ...

    Authors: Chuan-Hung Chen, Tony Chien-Yen Kuo, Meng-Han Yang, Ting-Ying Chien, Mei-Ju Chu, Li-Chun Huang, Chien-Yu Chen, Hsiao-Feng Lo, Shih-Tong Jeng and Long-Fang O Chen
    Citation: BMC Genomics 2014 15:578
    Content type: Research article Published on:

  5. Selective gene duplicability, the extensive expansion of a small number of gene families, is universal. Quantitatively, the number of genes (P(K)) with K duplicates in a genome decreases precipitously as K increa...

    Authors: Zhanyong Guo, Wen Jiang, Nuno Lages, Wade Borcherds and Degeng Wang
    Citation: BMC Genomics 2014 15:577
    Content type: Research article Published on:

  6. Mycoplasma hyopneumoniae causes respiratory disease in swine and contributes to the porcine respiratory disease complex, a major disease problem in the swine industry. The M. hyopneumoniae strain 232 genome is on...

    Authors: Ken Pendarvis, Matthew P Padula, Jessica L Tacchi, Andrew C Petersen, Steven P Djordjevic, Shane C Burgess and F Chris Minion
    Citation: BMC Genomics 2014 15:576
    Content type: Research article Published on:

  7. Symbiosis genes (nod and nif) involved in nodulation and nitrogen fixation in legumes are plasmid-borne in Rhizobium. Rhizobial symbiotic variants (symbiovars) with distinct host specificity would depend on the t...

    Authors: Marco A Rogel, Patricia Bustos, Rosa I Santamaría, Víctor González, David Romero, Miguel Ángel Cevallos, Luis Lozano, Jaime Castro-Mondragón, Julio Martínez-Romero, Ernesto Ormeño-Orrillo and Esperanza Martínez-Romero
    Citation: BMC Genomics 2014 15:575
    Content type: Research article Published on:

  8. Enteroaggregative Haemorrhagic E. coli (EAHEC) is a new pathogenic group of E. coli characterized by the presence of a vtx2-phage integrated in the genomic backbone of Enteroaggregative E. coli (EAggEC). So far, ...

    Authors: Laura Grande, Valeria Michelacci, Rosangela Tozzoli, Paola Ranieri, Antonella Maugliani, Alfredo Caprioli and Stefano Morabito
    Citation: BMC Genomics 2014 15:574
    Content type: Research article Published on:

  9. The animal mitochondrial genome is generally considered to be under selection for both compactness and gene order conservation. As more mitochondrial genomes are sequenced, mitochondrial duplications and gene ...

    Authors: Xiaoping Zhou, Qingxian Lin, Wenzhen Fang and Xiaolin Chen
    Citation: BMC Genomics 2014 15:573
    Content type: Research article Published on:

  10. Multiplex ligation-dependent probe amplification (MLPA) is a powerful tool to identify genomic polymorphisms. We have previously developed a single nucleotide polymorphism (SNP) and large sequence polymorphism...

    Authors: Sarah Sengstake, Nino Bablishvili, Anja Schuitema, Nino Bzekalava, Edgar Abadia, Jessica de Beer, Nona Tadumadze, Maka Akhalaia, Kiki Tuin, Nestani Tukvadze, Rusudan Aspindzelashvili, Elizabeta Bachiyska, Stefan Panaiotov, Christophe Sola, Dick van Soolingen, Paul Klatser…
    Citation: BMC Genomics 2014 15:572
    Content type: Methodology article Published on:

  11. Stevia (Stevia rebaudiana) is an important medicinal plant that yields diterpenoid steviol glycosides (SGs). SGs are currently used in the preparation of medicines, food products and neutraceuticals because of it...

    Authors: Junwen Chen, Kai Hou, Peng Qin, Hongchang Liu, Bin Yi, Wenting Yang and Wei Wu
    Citation: BMC Genomics 2014 15:571
    Content type: Research article Published on:

  12. The application of next-generation sequencing technology to gene expression quantification analysis, namely, RNA-Sequencing, has transformed the way in which gene expression studies are conducted and analyzed....

    Authors: Ashlee M Benjamin, Marshall Nichols, Thomas W Burke, Geoffrey S Ginsburg and Joseph E Lucas
    Citation: BMC Genomics 2014 15:570
    Content type: Research article Published on:

  13. Next-generation sequencing does not yield fully unbiased estimates for read abundance, which may impact on the conclusions that can be drawn from sequencing data. The ligation step in RNA sequencing library ge...

    Authors: Thomas J Jackson, Ruth V Spriggs, Nicholas J Burgoyne, Carolyn Jones and Anne E Willis
    Citation: BMC Genomics 2014 15:569
    Content type: Methodology article Published on:

  15. Growing interest in cellulolytic clostridia with potential for consolidated biofuels production is mitigated by low conversion of raw substrates to desired end products. Strategies to improve conversion are li...

    Authors: John J Schellenberg, Tobin J Verbeke, Peter McQueen, Oleg V Krokhin, Xiangli Zhang, Graham Alvare, Brian Fristensky, Gerhard G Thallinger, Bernard Henrissat, John A Wilkins, David B Levin and Richard Sparling
    Citation: BMC Genomics 2014 15:567
    Content type: Research article Published on:

  16. Comparative mitochondrial genomic analyses are rare among crustaceans below the family or genus level. The obliged subterranean crustacean amphipods of the family Metacrangonyctidae, found from the Hispaniola ...

    Authors: Joan Pons, Maria M Bauzà-Ribot, Damià Jaume and Carlos Juan
    Citation: BMC Genomics 2014 15:566
    Content type: Research article Published on:

  17. In clinical and basic research custom panels for transcript profiling are gaining importance because only project specific informative genes are interrogated. This approach reduces costs and complexity of data...

    Authors: Jitao David Zhang, Tobias Schindler, Erich Küng, Martin Ebeling and Ulrich Certa
    Citation: BMC Genomics 2014 15:565
    Content type: Methodology article Published on:

  18. Crohn’s disease (CD) is an inflammatory bowel disease caused by genetic and environmental factors. More than 160 susceptibility loci have been identified for IBD, yet a large part of the genetic variance remai...

    Authors: Britt-Sabina Petersen, Martina E Spehlmann, Andreas Raedler, Björn Stade, Ingo Thomsen, Raquel Rabionet, Philip Rosenstiel, Stefan Schreiber and Andre Franke
    Citation: BMC Genomics 2014 15:564
    Content type: Research article Published on:

  19. Hemolymph plays key roles in honey bee molecule transport, immune defense, and in monitoring the physiological condition. There is a lack of knowledge regarding how the proteome achieves these biological missi...

    Authors: Mao Feng, Haitham Ramadan, Bin Han, Yu Fang and Jianke Li
    Citation: BMC Genomics 2014 15:563
    Content type: Research article Published on:

  20. Domestication has shaped the horse and lead to a group of many different types. Some have been under strong human selection while others developed in close relationship with nature. The aim of our study was to...

    Authors: Julia Metzger, Raul Tonda, Sergi Beltran, Lídia Águeda, Marta Gut and Ottmar Distl
    Citation: BMC Genomics 2014 15:562
    Content type: Research article Published on:

  21. Cytoplasmic male sterility (CMS) is an inability to produce functional pollen that is caused by mutation of the mitochondrial genome. Comparative analyses of mitochondrial genomes of lines with and without CMS...

    Authors: Yeong Deuk Jo, Yoomi Choi, Dong-Hwan Kim, Byung-Dong Kim and Byoung-Cheorl Kang
    Citation: BMC Genomics 2014 15:561
    Content type: Research article Published on:

  22. Homoeologous sequences pose a particular challenge if bacterial artificial chromosome (BAC) contigs shall be established for specific regions of an allopolyploid genome. Single nucleotide polymorphisms (SNPs) ...

    Authors: Hieu Xuan Cao and Renate Schmidt
    Citation: BMC Genomics 2014 15:560
    Content type: Methodology article Published on:

  23. Breeding for enhanced immune response (IR) has been suggested as a tool to improve inherent animal health. Dairy cows with superior antibody-mediated (AMIR) and cell-mediated immune responses (CMIR) have been ...

    Authors: Kathleen A Thompson-Crispi, Mehdi Sargolzaei, Ricardo Ventura, Mohammed Abo-Ismail, Filippo Miglior, Flavio Schenkel and Bonnie A Mallard
    Citation: BMC Genomics 2014 15:559
    Content type: Research article Published on:

  26. Marker-assisted selection (MAS) and genomic selection (GS) based on genome-wide marker data provide powerful tools to predict the genotypic value of selection material in plant breeding. However, case-to-case ...

    Authors: Yu Wang, Michael Florian Mette, Thomas Miedaner, Marlen Gottwald, Peer Wilde, Jochen C Reif and Yusheng Zhao
    Citation: BMC Genomics 2014 15:556
    Content type: Research article Published on:

  27. PIWI-interacting RNA (piRNA) is a novel and emerging class of small non-coding RNA (sncRNA). Ranging in length from 26-32 nucleotides, this sncRNA is a potent player in guiding the vital regulatory processes w...

    Authors: Arijita Sarkar, Ranjan Kumar Maji, Sudipto Saha and Zhumur Ghosh
    Citation: BMC Genomics 2014 15:555
    Content type: Database Published on:

  28. The petal senescence of ethylene insensitive species has not been investigated thoroughly while little is known about the temporal and tissue specific expression patterns of transcription factors (TFs) in this...

    Authors: Georgios F Tsanakas, Maria E Manioudaki, Athanasios S Economou and Panagiotis Kalaitzis
    Citation: BMC Genomics 2014 15:554
    Content type: Research article Published on:

  29. Picea likiangensis var. balfouriana (Rehd. et Wils.) Hillier ex Slavin (also known as Picea balfouriana) is an ecologically and economically important conifer that grows rapidly under optimum conditions and produ...

    Authors: Qingfen Li, Shougong Zhang and Junhui Wang
    Citation: BMC Genomics 2014 15:553
    Content type: Research article Published on:

  30. Wine fermentation is a harsh ecological niche to which wine yeast are well adapted. The initial high osmotic pressure and acidity of grape juice is followed by nutrient depletion and increasing concentrations ...

    Authors: Michelle E Walker, Trung D Nguyen, Tommaso Liccioli, Frank Schmid, Nicholas Kalatzis, Joanna F Sundstrom, Jennifer M Gardner and Vladimir Jiranek
    Citation: BMC Genomics 2014 15:552
    Content type: Research article Published on:

  31. A LEP transcript up-regulated in lungs of ducks (Anas platyrhynchos) infected by avian influenza A virus was recently described in the Nature Genetics manuscript that reported the duck genome. In vertebrates, LEP

    Authors: Miriam Friedman-Einat and Eyal Seroussi
    Citation: BMC Genomics 2014 15:551
    Content type: Correspondence Published on:

  32. The domestic pig (Sus scrofa) is both an important livestock species and a model for biomedical research. Exome sequencing has accelerated identification of protein-coding variants underlying phenotypic traits...

    Authors: Christelle Robert, Pablo Fuentes-Utrilla, Karen Troup, Julia Loecherbach, Frances Turner, Richard Talbot, Alan L Archibald, Alan Mileham, Nader Deeb, David A Hume and Mick Watson
    Citation: BMC Genomics 2014 15:550
    Content type: Research article Published on:

  33. Aureobasidium pullulans is a black-yeast-like fungus used for production of the polysaccharide pullulan and the antimycotic aureobasidin A, and as a biocontrol agent in agriculture. It can cause opportunistic hum...

    Authors: Cene Gostinčar, Robin A Ohm, Tina Kogej, Silva Sonjak, Martina Turk, Janja Zajc, Polona Zalar, Martin Grube, Hui Sun, James Han, Aditi Sharma, Jennifer Chiniquy, Chew Yee Ngan, Anna Lipzen, Kerrie Barry, Igor V Grigoriev…
    Citation: BMC Genomics 2014 15:549
    Content type: Research article Published on:

  34. Protein kinases constitute a particularly large protein family in Arabidopsis with important functions in cellular signal transduction networks. At the same time Arabidopsis is a model plant with high frequencies...

    Authors: Monika Zulawski, Gunnar Schulze, Rostyslav Braginets, Stefanie Hartmann and Waltraud X Schulze
    Citation: BMC Genomics 2014 15:548
    Content type: Research article Published on:

  35. MicroRNAs (miRNAs) are small non-coding RNA molecules that downregulate gene expression by base pairing to the 3′-untranslated region (UTR) of target messenger RNAs (mRNAs). Up to now, rare information for the...

    Authors: Ya-Nan Song, Li-Li Shi, Zhi-Qiang Liu and Gao-Feng Qiu
    Citation: BMC Genomics 2014 15:547
    Content type: Research article Published on:

  37. Piwi-interacting RNAs (piRNAs) are a recently discovered class of small non-coding RNAs whose best-understood function is to repress mobile element (ME) activity in animal germline. To date, nearly all piRNA s...

    Authors: Hongseok Ha, Jimin Song, Shuoguo Wang, Aurélie Kapusta, Cédric Feschotte, Kevin C Chen and Jinchuan Xing
    Citation: BMC Genomics 2014 15:545
    Content type: Research article Published on:

  38. Myoblasts undergo major changes in their plasma membrane during the initial steps of skeletal muscle differentiation, including major alterations in the distribution of cholesterol. Cholesterol is involved in ...

    Authors: Ana CB Possidonio, Milene Miranda, Gustavo B Gregoracci, Fabiano L Thompson, Manoel L Costa and Claudia Mermelstein
    Citation: BMC Genomics 2014 15:544
    Content type: Research article Published on:

  39. There is a growing interest among geneticists in developing panels of Ancestry Informative Markers (AIMs) aimed at measuring the biogeographical ancestry of individual genomes. The efficiency of these panels i...

    Authors: Jacobo Pardo-Seco, Federico Martinón-Torres and Antonio Salas
    Citation: BMC Genomics 2014 15:543
    Content type: Research article Published on:

  40. Selection pressure on the number of teats has been applied to be able to provide enough teats for the increase in litter size in pigs. Although many QTL were reported, they cover large chromosomal regions and ...

    Authors: Naomi Duijvesteijn, Jacqueline M Veltmaat, Egbert F Knol and Barbara Harlizius
    Citation: BMC Genomics 2014 15:542
    Content type: Research article Published on:

  41. Production of carp dominates world aquaculture. More than 1.1 million tonnes of rohu carp, Labeo rohita (Hamilton), were produced in 2010. Aeromonas hydrophila is a bacterial pathogen causing aeromoniasis in rohu...

    Authors: Nicholas Robinson, Matthew Baranski, Kanta Das Mahapatra, Jatindra Nath Saha, Sweta Das, Jashobanta Mishra, Paramananda Das, Matthew Kent, Mariann Arnyasi and Pramoda Kumar Sahoo
    Citation: BMC Genomics 2014 15:541
    Content type: Research article Published on:

  42. Sugarcane is the source of sugar in all tropical and subtropical countries and is becoming increasingly important for bio-based fuels. However, its large (10 Gb), polyploid, complex genome has hindered genome ...

    Authors: Nathalia de Setta, Cláudia Barros Monteiro-Vitorello, Cushla Jane Metcalfe, Guilherme Marcelo Queiroga Cruz, Luiz Eduardo Del Bem, Renato Vicentini, Fábio Tebaldi Silveira Nogueira, Roberta Alvares Campos, Sideny Lima Nunes, Paula Cristina Gasperazzo Turrini, Andreia Prata Vieira, Edgar Andrés Ochoa Cruz, Tatiana Caroline Silveira Corrêa, Carlos Takeshi Hotta, Alessandro de Mello Varani, Sonia Vautrin…
    Citation: BMC Genomics 2014 15:540
    Content type: Research article Published on:

  43. Chromatin is a dynamic but highly regulated structure. DNA-binding proteins such as transcription factors, epigenetic and chromatin modifiers are responsible for regulating specific gene expression pattern and...

    Authors: Ting-Wen Chen, Hsin-Pai Li, Chi-Ching Lee, Ruei-Chi Gan, Po-Jung Huang, Timothy H Wu, Cheng-Yang Lee, Yi-Feng Chang and Petrus Tang
    Citation: BMC Genomics 2014 15:539
    Content type: Software Published on:

  44. Oomycetes are a group of filamentous microorganisms that includes both animal and plant pathogens and causes major agricultural losses. Phytophthora species can infect most crops and plants from natural ecosystem...

    Authors: Agnès Attard, Edouard Evangelisti, Naïma Kebdani-Minet, Franck Panabières, Emeline Deleury, Cindy Maggio, Michel Ponchet and Mathieu Gourgues
    Citation: BMC Genomics 2014 15:538
    Content type: Research article Published on:

  45. Segmental duplications (SDs) are not evenly distributed along chromosomes. The reasons for this biased susceptibility to SD insertion are poorly understood. Accumulation of SDs is associated with increased gen...

    Authors: Grit Ebert, Anne Steininger, Robert Weißmann, Vivien Boldt, Allan Lind-Thomsen, Jana Grune, Stefan Badelt, Melanie Heßler, Matthias Peiser, Manuel Hitzler, Lars R Jensen, Ines Müller, Hao Hu, Peter F Arndt, Andreas W Kuss, Katrin Tebel…
    Citation: BMC Genomics 2014 15:537
    Content type: Research article Published on:

  46. Cochliobolus heterostrophus is a dothideomycete that causes Southern Corn Leaf Blight disease. There are two races, race O and race T that differ by the absence (race O) and presence (race T) of ~ 1.2-Mb of DNA e...

    Authors: Mateus F Santana, José CF Silva, Eduardo SG Mizubuti, Elza F Araújo, Bradford J Condon, B Gillian Turgeon and Marisa V Queiroz
    Citation: BMC Genomics 2014 15:536
    Content type: Research article Published on:

  47. Burkholderia species play an important ecological role related to xenobiosis, the promotion of plant growth, the biocontrol of agricultural diseases, and symbiotic and non-symbiotic biological nitrogen fixation. ...

    Authors: Luiz Fernando Goda Zuleta, Claúdio de Oliveira Cunha, Fabíola Marques de Carvalho, Luciane Prioli Ciapina, Rangel Celso Souza, Fábio Martins Mercante, Sergio Miana de Faria, José Ivo Baldani, Rosangela Straliotto, Mariangela Hungria and Ana Tereza Ribeiro de Vasconcelos
    Citation: BMC Genomics 2014 15:535
    Content type: Research article Published on:

  48. Developmental transcriptional regulatory networks are circuits of transcription factors (TFs) and cis-acting DNA elements (Cis Regulatory Modules, CRMs) that dynamically control expression of downstream genes....

    Authors: Delphine Potier, Denis Seyres, Céline Guichard, Magali Iche-Torres, Stein Aerts, Carl Herrmann and Laurent Perrin
    Citation: BMC Genomics 2014 15:534
    Content type: Research article Published on:

  50. Gene expression genetic studies in human tissues and cells identify cis- and trans-acting expression quantitative trait loci (eQTLs). These eQTLs provide insights into regulatory mechanisms underlying disease ris...

    Authors: Xiaoling Zhang, Hinco J Gierman, Daniel Levy, Andrew Plump, Radu Dobrin, Harald HH Goring, Joanne E Curran, Matthew P Johnson, John Blangero, Stuart K Kim, Christopher J O’Donnell, Valur Emilsson and Andrew D Johnson
    Citation: BMC Genomics 2014 15:532
    Content type: Research article Published on:

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BMC Genomics

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