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  1. Nucleotide metabolism is central to all biological systems, due to their essential role in genetic information and energy transfer, which in turn suggests its possible presence in the last common ancestor (LCA...

    Authors: Dagoberto Armenta-Medina, Lorenzo Segovia and Ernesto Perez-Rueda
    Citation: BMC Genomics 2014 15:800
    Content type: Research article Published on:

  2. The vertebrate brain plays a critical role in the regulation of sexual maturation and reproduction by integrating environmental information with developmental and endocrine status. The European eel Anguilla angui...

    Authors: Allison M Churcher, Jose Martin Pujolar, Massimo Milan, Peter C Hubbard, Rute ST Martins, João L Saraiva, Mar Huertas, Luca Bargelloni, Tomaso Patarnello, Ilaria AM Marino, Lorenzo Zane and Adelino VM Canário
    Citation: BMC Genomics 2014 15:799
    Content type: Research article Published on:

  3. MicroRNAs (miRNAs) are an abundant class of small single-stranded non-coding RNA molecules ranging from 18 to 24 nucleotides. They negatively regulate gene expression at the post-transcriptional level and play...

    Authors: Clémence Desjardin, Anne Vaiman, Xavier Mata, Rachel Legendre, Johan Laubier, Sean P Kennedy, Denis Laloe, Eric Barrey, Claire Jacques, Edmond P Cribiu and Laurent Schibler
    Citation: BMC Genomics 2014 15:798
    Content type: Research article Published on:

  4. Belgian Blue cattle are famous for their exceptional muscular development or “double-muscling”. This defining feature emerged following the fixation of a loss-of-function variant in the myostatin gene in the e...

    Authors: Tom Druet, Naima Ahariz, Nadine Cambisano, Nico Tamma, Charles Michaux, Wouter Coppieters, Carole Charlier and Michel Georges
    Citation: BMC Genomics 2014 15:796
    Content type: Research article Published on:

  5. Mobile elements (MEs) constitute greater than 50% of the human genome as a result of repeated insertion events during human genome evolution. Although most of these elements are now fixed in the population, so...

    Authors: Jiantao Wu, Wan-Ping Lee, Alistair Ward, Jerilyn A Walker, Miriam K Konkel, Mark A Batzer and Gabor T Marth
    Citation: BMC Genomics 2014 15:795
    Content type: Methodology article Published on:

  6. High intracellular levels of unbound iron can contribute to the production of reactive oxygen species (ROS) via the Fenton reaction, while depletion of iron limits the availability of iron-containing proteins,...

    Authors: Bernhard Remes, Bork A Berghoff, Konrad U Förstner and Gabriele Klug
    Citation: BMC Genomics 2014 15:794
    Content type: Research article Published on:

  7. Phage ZZ1, which efficiently infects pathogenic Acinetobacter baumannii strains, is the fifth completely sequenced T4-like Acinetobacter phage to date. To gain a better understanding of the genetic characteristic...

    Authors: Jing Jin, Zhen-Jiang Li, Shu-Wei Wang, Shan-Mei Wang, Song-Jian Chen, De-Hai Huang, Gai Zhang, Ya-Hui Li, Xiao-Ting Wang, Jin Wang and Guo-Qiang Zhao
    Citation: BMC Genomics 2014 15:793
    Content type: Research article Published on:

  8. Galileo is one of three members of the P superfamily of DNA transposons. It was originally discovered in Drosophila buzzatii, in which three segregating chromosomal inversions were shown to have been generated by...

    Authors: Juliana W Gonçalves, Victor Hugo Valiati, Alejandra Delprat, Vera L S Valente and Alfredo Ruiz
    Citation: BMC Genomics 2014 15:792
    Content type: Research article Published on:

  9. Eukaryotic genomes are replicated during S phase according to a temporal program. Several determinants control the timing of origin firing, including the chromatin environment and epigenetic modifications. How...

    Authors: Ignacio Soriano, Esther C Morafraile, Enrique Vázquez, Francisco Antequera and Mónica Segurado
    Citation: BMC Genomics 2014 15:791
    Content type: Research article Published on:

  10. Female fertility is important for the maintenance of the production in a dairy cattle herd. Two QTL regions on BTA04 and on BTA13 previously detected in Nordic Holstein (NH) and validated in the Danish Jersey ...

    Authors: Johanna K Höglund, Goutam Sahana, Rasmus Froberg Brøndum, Bernt Guldbrandtsen, Bart Buitenhuis and Mogens S Lund
    Citation: BMC Genomics 2014 15:790
    Content type: Research article Published on:

  11. Hypercapnia and elevated temperatures resulting from climate change may have adverse consequences for many marine organisms. While diverse physiological and ecological effects have been identified, changes in ...

    Authors: Lars Harms, Stephan Frickenhaus, Melanie Schiffer, Felix Christopher Mark, Daniela Storch, Christoph Held, Hans-Otto Pörtner and Magnus Lucassen
    Citation: BMC Genomics 2014 15:789
    Content type: Research article Published on:

  12. More than 20% of the world’s population is at risk for infection by filarial nematodes and >180 million people worldwide are already infected. Along with infection comes significant morbidity that has a socioe...

    Authors: Luke J Tallon, Xinyue Liu, Sasisekhar Bennuru, Marcus C Chibucos, Alvaro Godinez, Sandra Ott, Xuechu Zhao, Lisa Sadzewicz, Claire M Fraser, Thomas B Nutman and Julie C Dunning Hotopp
    Citation: BMC Genomics 2014 15:788
    Content type: Research article Published on:

  13. Burkholderia pseudomallei, the causative agent of melioidosis, is a Gram-negative bacterium widely distributed in soil and water in endemic areas. This soil saprophyte can survive harsh environmental conditions, ...

    Authors: Siroj Jitprasutwit, Catherine Ong, Niramol Juntawieng, Wen Fong Ooi, Claudia M Hemsley, Paiboon Vattanaviboon, Richard W Titball, Patrick Tan and Sunee Korbsrisate
    Citation: BMC Genomics 2014 15:787
    Content type: Research article Published on:

  14. The koala, Phascolarctos cinereus, is a biologically unique and evolutionarily distinct Australian arboreal marsupial. The goal of this study was to sequence the transcriptome from several tissues of two geograph...

    Authors: Matthew Hobbs, Ana Pavasovic, Andrew G King, Peter J Prentis, Mark DB Eldridge, Zhiliang Chen, Donald J Colgan, Adam Polkinghorne, Marc R Wilkins, Cheyne Flanagan, Amber Gillett, Jon Hanger, Rebecca N Johnson and Peter Timms
    Citation: BMC Genomics 2014 15:786
    Content type: Research article Published on:

  15. A critical aspect of plant infection by the majority of pathogens is penetration of the plant cell wall. This process requires the production and secretion of a broad spectrum of pathogen enzymes that target a...

    Authors: Leila M Blackman, Darren P Cullerne and Adrienne R Hardham
    Citation: BMC Genomics 2014 15:785
    Content type: Research article Published on:

  16. Acute myeloid leukemia with complex karyotype (CK-AML) is a distinct biological entity associated with a very poor outcome. Since complex karyotypes frequently contain deletions of the chromosomal region 12p13...

    Authors: Simone Feurstein, Frank G Rücker, Lars Bullinger, Winfried Hofmann, Georgi Manukjan, Gudrun Göhring, Ulrich Lehmann, Michael Heuser, Arnold Ganser, Konstanze Döhner, Brigitte Schlegelberger and Doris Steinemann
    Citation: BMC Genomics 2014 15:784
    Content type: Research article Published on:

  17. RNA sequencing technologies reveal that bacteria express RNA molecules other than mRNA, rRNA or tRNA. During the last years genome-wide bacterial transcriptomes have been shown to comprise intergenic RNA, anti...

    Authors: María Gómez-Lozano, Rasmus L Marvig, Monica VL Tulstrup and Søren Molin
    Citation: BMC Genomics 2014 15:783
    Content type: Research article Published on:

  18. Introgression populations are used to make the genetic variation of unadapted germplasm or wild relatives of crops available for plant breeding. They consist of introgression lines that carry small chromosome ...

    Authors: Karen Christin Falke, Gregory S Mahone, Eva Bauer, Grit Haseneyer, Thomas Miedaner, Frank Breuer and Matthias Frisch
    Citation: BMC Genomics 2014 15:782
    Content type: Research article Published on:

  19. Little is known about the interplay between n-3 fatty acids and genetic variants for diabetes-related traits at the genome-wide level. The present study aimed to examine variance contributions of genotype by e...

    Authors: Ju-Sheng Zheng, Chao-Qiang Lai, Laurence D Parnell, Yu-Chi Lee, Jian Shen, Caren E Smith, Patricia Casas-Agustench, Kris Richardson, Duo Li, Sabrina E Noel, Katherine L Tucker, Donna K Arnett, Ingrid B Borecki and José M Ordovás
    Citation: BMC Genomics 2014 15:781
    Content type: Research article Published on:

  20. Wood formation in tree species is regulated by multiple factors at various layers. Alternative splicing (AS) occurs within a large number of genes in wood formation. However, the functional implications and co...

    Authors: Peng Xu, Yimeng Kong, Dongliang Song, Cheng Huang, Xuan Li and Laigeng Li
    Citation: BMC Genomics 2014 15:780
    Content type: Research article Published on:

  21. Adaptation of mammals to terrestrial life was facilitated by the unique vertebrate trait of body hair, which occurs in a range of morphological patterns. Keratin associated proteins (KRTAPs), the major structu...

    Authors: Imran Khan, Emanuel Maldonado, Vítor Vasconcelos, Stephen J O’Brien, Warren E Johnson and Agostinho Antunes
    Citation: BMC Genomics 2014 15:779
    Content type: Research article Published on:

  22. Defects in airway mucosal defense, including decreased mucus clearance, contribute to the pathogenesis of human chronic obstructive pulmonary diseases. Scnn1b-Tg mice, which exhibit chronic airway surface dehydra...

    Authors: Yogesh Saini, Hong Dang, Alessandra Livraghi-Butrico, Elizabeth J Kelly, Lisa C Jones, Wanda K O’Neal and Richard C Boucher
    Citation: BMC Genomics 2014 15:726
    Content type: Research article Published on:

  23. Current trends in sheep farming practices rely on animals with a greater level of behavioral autonomy than before, a phenotype that actively contributes to the sustainability of animal production. Social react...

    Authors: Dominique Hazard, Carole Moreno, Didier Foulquié, Eric Delval, Dominique François, Jacques Bouix, Guillaume Sallé and Alain Boissy
    Citation: BMC Genomics 2014 15:778
    Content type: Research article Published on:

  24. MicroRNAs (miRNAs) play a pivotal role in coordinating messenger RNA (mRNA) transcription and stability in almost all known biological processes, including the development of the central nervous system. Despit...

    Authors: Sharon L Hollins, Belinda J Goldie, Adam P Carroll, Elizabeth A Mason, Frederick R Walker, Darryl W Eyles and Murray J Cairns
    Citation: BMC Genomics 2014 15:777
    Content type: Research article Published on:

  25. Cyanobacteria constitute a serious threat to freshwater ecosystems by producing toxic secondary metabolites, e.g. microcystins. These microcystins have been shown to harm livestock, pets and humans and to affe...

    Authors: Anke Schwarzenberger, Thomas Sadler, Susanne Motameny, Kamel Ben-Khalifa, Peter Frommolt, Janine Altmüller, Kathryn Konrad and Eric von Elert
    Citation: BMC Genomics 2014 15:776
    Content type: Research article Published on:

  26. RNA interference (RNAi) leads to sequence specific knock-down of gene expression and has emerged as an important tool to analyse gene functions, pathway analysis and gene therapy. Although RNAi is a conserved ...

    Authors: Subhanita Ghosh, Pavan Kumar Kakumani, Ajit Kumar, Pawan Malhotra, Sunil K Mukherjee and Raj K Bhatnagar
    Citation: BMC Genomics 2014 15:775
    Content type: Research article Published on:

  27. The probable influence of genes and the environment on sex determination in Nile tilapia suggests that it should be regarded as a complex trait. Detection of sex determination genes in tilapia has both scienti...

    Authors: Orly Eshel, Andrey Shirak, Lior Dor, Mark Band, Tatyana Zak, Michal Markovich-Gordon, Vered Chalifa-Caspi, Esther Feldmesser, Joel I Weller, Eyal Seroussi, Gideon Hulata and Micha Ron
    Citation: BMC Genomics 2014 15:774
    Content type: Research article Published on:

  30. Lactobacillus salivarius strains are increasingly being exploited for their probiotic properties in humans and animals. Dissemination of antibiotic resistance genes among species with food or probiotic-associatio...

    Authors: Emma J Raftis, Brian M Forde, Marcus J Claesson and Paul W O’Toole
    Citation: BMC Genomics 2014 15:771
    Content type: Research article Published on:

  31. Regulation of transcription is essential for any organism and Rhizobium etli (a multi-replicon, nitrogen-fixing symbiotic bacterium) is no exception. This bacterium is commonly found in the rhizosphere (free-livi...

    Authors: Gamaliel López-Leal, Maria Luisa Tabche, Santiago Castillo-Ramírez, Alfredo Mendoza-Vargas, Miguel A Ramírez-Romero and Guillermo Dávila
    Citation: BMC Genomics 2014 15:770
    Content type: Research article Published on:

  32. Streptococcus pneumoniae (the pneumococcus) is the world’s foremost microbial pathogen, killing more people each year than HIV, TB or malaria. The capacity to penetrate deeper host tissues contributes substantial...

    Authors: Layla K Mahdi, Tahereh Deihimi, Fatemeh Zamansani, Mario Fruzangohar, David L Adelson, James C Paton, Abiodun D Ogunniyi and Esmaeil Ebrahimie
    Citation: BMC Genomics 2014 15:769
    Content type: Research article Published on:

  33. Waterborne Campylobacter jejuni outbreaks are common in the Nordic countries, and PFGE (pulsed field gel electrophoresis) remains the genotyping method of choice in outbreak investigations. However, PFGE cannot a...

    Authors: Joana Revez, Ann-Katrin Llarena, Thomas Schott, Markku Kuusi, Marjaana Hakkinen, Rauni Kivistö, Marja-Liisa Hänninen and Mirko Rossi
    Citation: BMC Genomics 2014 15:768
    Content type: Research article Published on:

  34. A large single nucleotide polymorphism (SNP) dataset was used to analyze genome-wide diversity in a diverse collection of watermelon cultivars representing globally cultivated, watermelon genetic diversity. Th...

    Authors: Padma Nimmakayala, Amnon Levi, Lavanya Abburi, Venkata Lakshmi Abburi, Yan R Tomason, Thangasamy Saminathan, Venkata Gopinath Vajja, Sridhar Malkaram, Rishi Reddy, Todd C Wehner, Sharon E Mitchell and Umesh K Reddy
    Citation: BMC Genomics 2014 15:767
    Content type: Research article Published on:

  35. Small RNA (sRNA) has been described as a regulator of gene expression. In order to understand the role of maize sRNA (Zea mays – hybrid UENF 506-8) during association with endophytic nitrogen-fixing bacteria, we ...

    Authors: Flávia Thiebaut, Cristian A Rojas, Clícia Grativol, Mariana Romeiro Motta, Tauan Vieira, Michael Regulski, Robert A Martienssen, Laurent Farinelli, Adriana S Hemerly and Paulo CG Ferreira
    Citation: BMC Genomics 2014 15:766
    Content type: Research article Published on:

  36. Water temperature greatly influences the physiology and behaviour of teleost fish as other aquatic organisms. While fish are able to cope with seasonal temperature variations, thermal excursions outside their ...

    Authors: Alba N Mininni, Massimo Milan, Serena Ferraresso, Tommaso Petochi, Patrizia Di Marco, Giovanna Marino, Silvia Livi, Chiara Romualdi, Luca Bargelloni and Tomaso Patarnello
    Citation: BMC Genomics 2014 15:765
    Content type: Research article Published on:

  38. Production of D-xylonate by the yeast S. cerevisiae provides an example of bioprocess development for sustainable production of value-added chemicals from cheap raw materials or side streams. Production of D-xylo...

    Authors: Dominik Mojzita, Merja Oja, Eija Rintala, Marilyn Wiebe, Merja Penttilä and Laura Ruohonen
    Citation: BMC Genomics 2014 15:763
    Content type: Research article Published on:

  39. The widespread use of genome sequencing provided evidences for the high degree of conservation in innate immunity signalling pathways across animal phyla. However, the functioning and evolutionary history of i...

    Authors: Géraldine Dubreuil, Emeline Deleury, Didier Crochard, Jean-Christophe Simon and Christine Coustau
    Citation: BMC Genomics 2014 15:762
    Content type: Research article Published on:

  40. Mangalicas are fatty type local/rare pig breeds with an increasing presence in the niche pork market in Hungary and in other countries. To explore their genetic resources, we have analysed data from next-gener...

    Authors: János Molnár, Tibor Nagy, Viktor Stéger, Gábor Tóth, Ferenc Marincs and Endre Barta
    Citation: BMC Genomics 2014 15:761
    Content type: Research article Published on:

  41. Cotton (Gossypium spp.) is one of the major fibre crops of the world. Although it is classified as salt tolerant crop, cotton growth and productivity are adversely affected by high salinity, especially at germina...

    Authors: Zhen Peng, Shoupu He, Wenfang Gong, Junling Sun, Zhaoe Pan, Feifei Xu, Yanli Lu and Xiongming Du
    Citation: BMC Genomics 2014 15:760
    Content type: Research article Published on:

  42. Diamond–Blackfan anemia (DBA) is a class of human diseases linked to defective ribosome biogenesis that results in clinical phenotypes. Genetic mutations in ribosome protein (RP) genes lead to DBA phenotypes, ...

    Authors: Binfeng Song, Qian Zhang, Zhaojun Zhang, Yang Wan, Qiong Jia, Xiaomin Wang, Xiaofan Zhu, Anskar Yu-Hung Leung, Tao Cheng, Xiangdong Fang, Weiping Yuan and Haibo Jia
    Citation: BMC Genomics 2014 15:759
    Content type: Research article Published on:

  43. The genetic determinism of blood lipid concentrations, the main risk factor for atherosclerosis, is practically unknown in species other than human and mouse. Even in model organisms, little is known about how...

    Authors: Arianna Manunza, Joaquim Casellas, Raquel Quintanilla, Rayner González-Prendes, Ramona N Pena, Joan Tibau, Anna Mercadé, Anna Castelló, Nitdia Aznárez, Jules Hernández-Sánchez and Marcel Amills
    Citation: BMC Genomics 2014 15:758
    Content type: Research article Published on:

  44. Genes, RNAs, and proteins play important roles during germline development. However, the functions of non-coding RNAs (ncRNAs) on germline development remain unclear in avian species. Recent high-throughput te...

    Authors: Deivendran Rengaraj, Sang In Lee, Tae Sub Park, Hong Jo Lee, Young Min Kim, Yoon Ah Sohn, Myunghee Jung, Seung-Jae Noh, Hojin Jung and Jae Yong Han
    Citation: BMC Genomics 2014 15:757
    Content type: Research article Published on:

  45. During mammalian pre-implantation embryonic development dramatic and orchestrated changes occur in gene transcription. The identification of the complete changes has not been possible until the development of ...

    Authors: Zongliang Jiang, Jiangwen Sun, Hong Dong, Oscar Luo, Xinbao Zheng, Craig Obergfell, Yong Tang, Jinbo Bi, Rachel O’Neill, Yijun Ruan, Jingbo Chen and Xiuchun (Cindy) Tian
    Citation: BMC Genomics 2014 15:756
    Content type: Research article Published on:

  46. Bacterial panicle blight caused by the bacterium Burkholderia glumae is an emerging disease of rice in the United States. Not much is known about this disease, the disease cycle or any source of disease resistanc...

    Authors: Zenaida V Magbanua, Mark Arick II, Teresia Buza, Chuan-Yu Hsu, Kurt C Showmaker, Philippe Chouvarine, Peng Deng, Daniel G Peterson and Shien Lu
    Citation: BMC Genomics 2014 15:755
    Content type: Research article Published on:

  47. The annual fish Nothobranchius furzeri is characterized by a natural dichromatism with yellow-tailed and red-tailed male individuals. These differences are due to different distributions of xanthophores and eryth...

    Authors: Enoch Ng’oma, Marco Groth, Roberto Ripa, Matthias Platzer and Alessandro Cellerino
    Citation: BMC Genomics 2014 15:754
    Content type: Research article Published on:

  48. Human gut microbiota plays an important role in the pathogenesis of cirrhosis complications. Although the phylogenetic diversity of intestinal microbiota in patients with liver cirrhosis has been examined in s...

    Authors: Yanfei Chen, Nan Qin, Jing Guo, Guirong Qian, Daiqiong Fang, Ding Shi, Min Xu, Fengling Yang, Zhili He, Joy D Van Nostrand, Tong Yuan, Ye Deng, Jizhong Zhou and Lanjuan Li
    Citation: BMC Genomics 2014 15:753
    Content type: Research article Published on:

  49. Motif enrichment analysis of transcription factor ChIP-seq data can help identify transcription factors that cooperate or compete. Previously, little attention has been given to comparative motif enrichment analy...

    Authors: Tom Lesluyes, James Johnson, Philip Machanick and Timothy L Bailey
    Citation: BMC Genomics 2014 15:752
    Content type: Methodology article Published on:

  50. The suborder Anoplura contains 540 species of blood-sucking lice that parasitize over 840 species of eutherian mammals. Fragmented mitochondrial (mt) genomes have been found in the lice of humans, pigs, horses...

    Authors: Wen-Ge Dong, Simon Song, Xian-Guo Guo, Dao-Chao Jin, Qianqian Yang, Stephen C Barker and Renfu Shao
    Citation: BMC Genomics 2014 15:751
    Content type: Research article Published on:

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BMC Genomics

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