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  1. In contrast to most animal genomes, mitochondrial genomes in species belonging to the phylum Cnidaria show distinct variations in genome structure, including the mtDNA structure (linear or circular) and the pr...

    Authors: Shen Song, Feng Jiang, Jianbo Yuan, Wei Guo and Yongwang Miao
    Citation: BMC Genomics 2013 14:447
    Content type: Research article Published on:

  2. Pattern-oriented chemical profiling is increasingly being used to characterize the phytochemical composition of herbal medicines for quality control purposes. Ideally, a fingerprint of the biological effects s...

    Authors: Rebekah Cook, James R Hennell, Samiuela Lee, Cheang S Khoo, Maria C Carles, Vincent J Higgins, Suresh Govindaraghavan and Nikolaus J Sucher
    Citation: BMC Genomics 2013 14:445
    Content type: Research article Published on:

  3. The heterogeneous progression of atherosclerotic disease in the peripheral arteries is currently not well understood. In humans, artery specific disease progression is partly attributed to the local hemodynami...

    Authors: Martin Bahls, Christopher A Bidwell, Juan Hu, Armando Tellez, Greg L Kaluza, Juan F Granada, Christian G Krueger, Jess D Reed, M Harold Laughlin, William G Van Alstine and Sean C Newcomer
    Citation: BMC Genomics 2013 14:443
    Content type: Research article Published on:

  4. Abiotic stress causes disturbances in the cellular homeostasis. Re-adjustment of balance in carbon, nitrogen and phosphorus metabolism therefore plays a central role in stress adaptation. However, it is curren...

    Authors: Urte Schlüter, Christian Colmsee, Uwe Scholz, Andrea Bräutigam, Andreas PM Weber, Nina Zellerhoff, Marcel Bucher, Holger Fahnenstich and Uwe Sonnewald
    Citation: BMC Genomics 2013 14:442
    Content type: Research article Published on:

  5. DNA duplications constitute important precursors for genome variation. Here we analyzed an unequal duplication harboring a beneficial mutation that may provide alternative evolutionary outcomes.

    Authors: Ram P Maharjan, Joël Gaffé, Jessica Plucain, Martin Schliep, Lei Wang, Lu Feng, Olivier Tenaillon, Thomas Ferenci and Dominique Schneider
    Citation: BMC Genomics 2013 14:441
    Content type: Research article Published on:

  6. Many large-scale studies analyzed high-throughput genomic data to identify altered pathways essential to the development and progression of specific types of cancer. However, no previous study has been extende...

    Authors: Tae Hyun Hwang, Gowtham Atluri, Rui Kuang, Vipin Kumar, Timothy Starr, Kevin AT Silverstein, Peter M Haverty, Zemin Zhang and Jinfeng Liu
    Citation: BMC Genomics 2013 14:440
    Content type: Research article Published on:

  7. DNA extracted from historical samples is an important resource for understanding genetic consequences of anthropogenic influences and long-term environmental change. However, such samples generally yield DNA o...

    Authors: Susan E Johnston, Meri Lindqvist, Eero Niemelä, Panu Orell, Jaakko Erkinaro, Matthew P Kent, Sigbjørn Lien, Juha-Pekka Vähä, Anti Vasemägi and Craig R Primmer
    Citation: BMC Genomics 2013 14:439
    Content type: Methodology article Published on:

  8. MicroRNAs are very small non-coding RNAs that interact with microRNA recognition elements (MREs) on their target messenger RNAs. Varying the concentration of a given microRNA may influence the expression of ma...

    Authors: Cheng-Tao Wu, Chien-Ying Chiou, Ho-Chen Chiu and Ueng-Cheng Yang
    Citation: BMC Genomics 2013 14:438
    Content type: Research article Published on:

  9. Ryegrasses and fescues (genera, Lolium and Festuca) are species of forage and turf grasses which are used widely in agricultural and amenity situations. They are classified within the sub-family Pooideae and so a...

    Authors: Julie King, Ann Thomas, Caron James, Ian King and Ian Armstead
    Citation: BMC Genomics 2013 14:437
    Content type: Research article Published on:

  10. The ability to adapt to environments with fluctuating nutrient availability is vital for bacterial survival. Although essential for growth, few nitrogen metabolism genes have been identified or fully character...

    Authors: Kerstin J Williams, William A Bryant, Victoria A Jenkins, Geraint R Barton, Adam A Witney, John W Pinney and Brian D Robertson
    Citation: BMC Genomics 2013 14:436
    Content type: Research article Published on:

  11. Legionella is a water and soil bacterium that can infect humans, causing a pneumonia known as Legionnaires’ disease. The pneumonia is almost exclusively caused by the species L. pneumophila, of which serogroup 1 ...

    Authors: Jeroen W Den Boer, Sjoerd M Euser, Nico J Nagelkerke, Frank Schuren, Sophie Jarraud and Jerome Etienne
    Citation: BMC Genomics 2013 14:435
    Content type: Research article Published on:

  12. Salamanders are unique among vertebrates in their ability to completely regenerate amputated limbs through the mediation of blastema cells located at the stump ends. This regeneration is nerve-dependent becaus...

    Authors: Cheng-Han Wu, Mong-Hsun Tsai, Chia-Chuan Ho, Chien-Yu Chen and Hsuan-Shu Lee
    Citation: BMC Genomics 2013 14:434
    Content type: Research article Published on:

  13. Calcium-dependent protein kinases (CDPKs) have been shown to play important roles in various physiological processes, including plant growth and development, abiotic and biotic stress responses and plant hormo...

    Authors: Xiangpei Kong, Wei Lv, Shanshan Jiang, Dan Zhang, Guohua Cai, Jiaowen Pan and Dequan Li
    Citation: BMC Genomics 2013 14:433
    Content type: Research article Published on:

  14. The major clinical manifestations of Entamoeba histolytica infection include amebic colitis and liver abscess. However the majority of infections remain asymptomatic. Earlier reports have shown that some E. histo...

    Authors: Vandana Kumari, Lakshmi Rani Iyer, Riti Roy, Varsha Bhargava, Suchita Panda, Jaishree Paul, Jaco J Verweij, C Graham Clark, Alok Bhattacharya and Sudha Bhattacharya
    Citation: BMC Genomics 2013 14:432
    Content type: Research article Published on:

  15. Bacteria belonging to the genus Novosphingobium are known to be metabolically versatile and occupy different ecological niches. In the absence of genomic data and/or analysis, knowledge of the bacteria that belon...

    Authors: Han Ming Gan, André O Hudson, Ahmad Yamin Abdul Rahman, Kok Gan Chan and Michael A Savka
    Citation: BMC Genomics 2013 14:431
    Content type: Research article Published on:

  16. Mutans streptococci are a group of bacteria significantly contributing to tooth decay. Their genetic variability is however still not well understood.

    Authors: Lifu Song, Wei Wang, Georg Conrads, Anke Rheinberg, Helena Sztajer, Michael Reck, Irene Wagner-Döbler and An-Ping Zeng
    Citation: BMC Genomics 2013 14:430
    Content type: Research article Published on:

    The Erratum to this article has been published in BMC Genomics 2013 14:811

  17. How cells decipher the duration of an external signal into different transcriptional outcomes is poorly understood. The hormone gastrin can promote a variety of cellular responses including proliferation, diff...

    Authors: Linn-Karina M Selvik, Christina S Fjeldbo, Arnar Flatberg, Tonje S Steigedal, Kristine Misund, Endre Anderssen, Berit Doseth, Mette Langaas, Sushil Tripathi, Vidar Beisvag, Astrid Lægreid, Liv Thommesen and Torunn Bruland
    Citation: BMC Genomics 2013 14:429
    Content type: Research article Published on:

  18. Chromatin plays a critical role in regulating transcription factors (TFs) binding to their canonical transcription factor binding sites (TFBS). Recent studies in vertebrates show that many TFs preferentially b...

    Authors: Ximiao He, Raghunath Chatterjee, Sam John, Hector Bravo, B K Sathyanarayana, Simon C Biddie, Peter C FitzGerald, John A Stamatoyannopoulos, Gordon L Hager and Charles Vinson
    Citation: BMC Genomics 2013 14:428
    Content type: Research article Published on:

  19. Plasmodium parasites, the causative agents of malaria, express many variant antigens on cell surfaces. Variant surface antigens (VSAs) are typically organized into large subtelomeric gene families that play criti...

    Authors: Christian Frech and Nansheng Chen
    Citation: BMC Genomics 2013 14:427
    Content type: Research article Published on:

  20. Brucella abortus is an intracellular zoonotic pathogen which causes undulant fever, endocarditis, arthritis and osteomyelitis in human and abortion and infertility in cattle. This bacterium is able to invade and ...

    Authors: Seung Bin Cha, Won Jung Lee, Min Kyoung Shin, Myung Hwan Jung, Seung Won Shin, An Na Yoo, Jong Wan Kim and Han Sang Yoo
    Citation: BMC Genomics 2013 14:426
    Content type: Research article Published on:

  21. Technical improvements have decreased sequencing costs and, as a result, the size and number of genomic datasets have increased rapidly. Because of the lower cost, large amounts of sequence data are now being ...

    Authors: Shanrong Zhao, Kurt Prenger, Lance Smith, Thomas Messina, Hongtao Fan, Edward Jaeger and Susan Stephens
    Citation: BMC Genomics 2013 14:425
    Content type: Software Published on:

  22. Frost tolerance is a key trait with economic and agronomic importance in barley because it is a major component of winter hardiness, and therefore limits the geographical distribution of the crop and the effec...

    Authors: Andrea Visioni, Alessandro Tondelli, Enrico Francia, Alexander Pswarayi, Marcos Malosetti, Joanne Russell, William Thomas, Robbie Waugh, Nicola Pecchioni, Ignacio Romagosa and Jordi Comadran
    Citation: BMC Genomics 2013 14:424
    Content type: Research article Published on:

  23. Wheat – Hessian fly interaction follows a typical gene-for-gene model. Hessian fly larvae die in wheat plants carrying an effective resistance gene, or thrive in susceptible plants that carry no effective resi...

    Authors: Chitvan Khajuria, Haiyan Wang, Xuming Liu, Shanda Wheeler, John C Reese, Mustapha El Bouhssini, R Jeff Whitworth and Ming-Shun Chen
    Citation: BMC Genomics 2013 14:423
    Content type: Research article Published on:

  24. Mycobacterium tuberculosis Beijing strains are characterized by a large number of IS6110 copies, suggesting the potential implication of this element in the virulence and capacity for rapid dissemination characte...

    Authors: Henar Alonso, Sofía Samper, Carlos Martín and Isabel Otal
    Citation: BMC Genomics 2013 14:422
    Content type: Research article Published on:

  25. Lawsonia intracellularis is an obligate intracellular bacterium and the etiologic agent of proliferative enteropathy. The disease is endemic in pigs, emerging in horses and has been described in various other spe...

    Authors: Fabio A Vannucci, Douglas N Foster and Connie J Gebhart
    Citation: BMC Genomics 2013 14:421
    Content type: Research article Published on:

  28. In this paper, we address the evidence for the Ambush Hypothesis. Proposed by Seligmann and Pollock, this hypothesis posits that there exists a selection for off-frame stop codons (OSCs) to counteract the poss...

    Authors: David W Morgens, Charlotte H Chang and Andre RO Cavalcanti
    Citation: BMC Genomics 2013 14:418
    Content type: Research article Published on:

  29. Nilaparvata lugens (the brown planthopper, BPH) and Laodelphax striatellus (the small brown planthopper, SBPH) are two of the most important pests of rice. Up to now, there was only one mitochondrial genome of ri...

    Authors: Kai-Jun Zhang, Wen-Chao Zhu, Xia Rong, Yan-Kai Zhang, Xiu-Lei Ding, Jing Liu, Da-Song Chen, Yu Du and Xiao-Yue Hong
    Citation: BMC Genomics 2013 14:417
    Content type: Research article Published on:

  30. Adaptation of Pseudomonas aeruginosa to different living conditions is accompanied by microevolution resulting in genomic diversity between strains of the same clonal lineage. In order to detect the impact of col...

    Authors: Oliver KI Bezuidt, Jens Klockgether, Sylvie Elsen, Ina Attree, Colin F Davenport and Burkhard Tümmler
    Citation: BMC Genomics 2013 14:416
    Content type: Research article Published on:

  31. Tea is the most popular non-alcoholic health beverage in the world. The tea plant (Camellia sinensis (L.) O. Kuntze) needs to undergo a cold acclimation process to enhance its freezing tolerance in winter. Change...

    Authors: Xin-Chao Wang, Qiong-Yi Zhao, Chun-Lei Ma, Zong-Hong Zhang, Hong-Li Cao, Yi-Meng Kong, Chuan Yue, Xin-Yuan Hao, Liang Chen, Jian-Qiang Ma, Ji-Qiang Jin, Xuan Li and Ya-Jun Yang
    Citation: BMC Genomics 2013 14:415
    Content type: Research article Published on:

  32. Analyses of mitochondrial (mt) genome sequences in recent years challenge the current working hypothesis of Nematoda phylogeny proposed from morphology, ecology and nuclear small subunit rRNA gene sequences, a...

    Authors: Guo-Hua Liu, Renfu Shao, Jia-Yuan Li, Dong-Hui Zhou, Hu Li and Xing-Quan Zhu
    Citation: BMC Genomics 2013 14:414
    Content type: Research article Published on:

  34. Sexual reproduction is a widely studied biological process because it is critically important to the genetics, evolution, and ecology of eukaryotes. Despite decades of study on this topic, no comprehensive exp...

    Authors: Sara J Hanson, Claus-Peter Stelzer, David B Mark Welch and John M Logsdon Jr
    Citation: BMC Genomics 2013 14:412
    Content type: Research article Published on:

  35. Nomuraea rileyi is used as an environmental-friendly biopesticide. However, mass production and commercialization of this organism are limited due to its fastidious growth and sporulation requirements. When cultu...

    Authors: Zhangyong Song, Youping Yin, Shasha Jiang, Juanjuan Liu, Huan Chen and Zhongkang Wang
    Citation: BMC Genomics 2013 14:411
    Content type: Research article Published on:

  36. Phylogenetic comparison of bacteriophages requires whole genome approaches such as dotplot analysis, genome pairwise maps, and gene content analysis. Currently mycobacteriophages, a highly studied phage group,...

    Authors: Kyle C Smith, Eduardo Castro-Nallar, Joshua NB Fisher, Donald P Breakwell, Julianne H Grose and Sandra H Burnett
    Citation: BMC Genomics 2013 14:410
    Content type: Research article Published on:

  38. Caligid copepods, also called sea lice, are fish ectoparasites, some species of which cause significant problems in the mariculture of salmon, where the annual cost of infection is in excess of €300 million gl...

    Authors: Stephen N Carmichael, James E Bron, John B Taggart, Jacqueline H Ireland, Michaël Bekaert, Stewart TG Burgess, Philip J Skuce, Alasdair J Nisbet, Karim Gharbi and Armin Sturm
    Citation: BMC Genomics 2013 14:408
    Content type: Research article Published on:

  39. Sturgeons are a group of Condrostean fish with very high evolutionary, economical and conservation interest. The eggs of these living fossils represent one of the most high prized foods of animal origin. The i...

    Authors: Michele Vidotto, Alessandro Grapputo, Elisa Boscari, Federica Barbisan, Alessandro Coppe, Gilberto Grandi, Abhishek Kumar and Leonardo Congiu
    Citation: BMC Genomics 2013 14:407
    Content type: Research article Published on:

  40. It was recently established that changes in methylation during development are dynamic and involve both methylation and demethylation processes. Yet, which genomic sites are changing and what are the contribut...

    Authors: Béatrice de Montera, Eric Fournier, Habib Allah Shojaei Saadi, Dominic Gagné, Isabelle Laflamme, Patrick Blondin, Marc-André Sirard and Claude Robert
    Citation: BMC Genomics 2013 14:406
    Content type: Research article Published on:

  41. Cubilin is an endocytic receptor that is necessary for renal and intestinal absorption of a range of ligands. Endocytosis mediated by cubilin and its co-receptor megalin is the principal mechanism for proximal...

    Authors: Obaidullah Aseem, Jeremy L Barth, Sandra C Klatt, Brian T Smith and W Scott Argraves
    Citation: BMC Genomics 2013 14:405
    Content type: Research article Published on:

  42. Tuberculosis remains a major public health problem. Clinical tuberculosis manifests often as pulmonary and occasionally as extra-pulmonary tuberculosis. The emergence of drug resistant tubercle bacilli and its as...

    Authors: Sarbashis Das, Tanmoy Roychowdhury, Parameet Kumar, Anil Kumar, Priya Kalra, Jitendra Singh, Sarman Singh, HK Prasad and Alok Bhattacharya
    Citation: BMC Genomics 2013 14:404
    Content type: Research article Published on:

  43. Cotton fiber length is very important to the quality of textiles. Understanding the genetics and physiology of cotton fiber elongation can provide valuable tools to the cotton industry by targeting genes or ot...

    Authors: Matthew K Gilbert, Rickie B Turley, Hee Jin Kim, Ping Li, Gregory Thyssen, Yuhong Tang, Christopher D Delhom, Marina Naoumkina and David D Fang
    Citation: BMC Genomics 2013 14:403
    Content type: Research article Published on:

  45. The whiteflies under the name Bemisia tabaci (Gennadius) (Aleyrodidae: Hemiptera) are species complex of at least 31 cryptic species some of which are globally invasive agricultural pests. Previously, the mitocho...

    Authors: Hua-Ling Wang, Jiao Yang, Laura M Boykin, Qiong-Yi Zhao, Qian Li, Xiao-Wei Wang and Shu-Sheng Liu
    Citation: BMC Genomics 2013 14:401
    Content type: Research article Published on:

  46. As a step towards understanding coral immunity we present the first whole transcriptome analysis of the acute responses of Acropora millepora to challenge with the bacterial cell wall derivative MDP and the viral...

    Authors: Yvonne Weiss, Sylvain Forêt, David C Hayward, Tracy Ainsworth, Rob King, Eldon E Ball and David J Miller
    Citation: BMC Genomics 2013 14:400
    Content type: Research article Published on:

  47. In the model organism Saccharomyces cerevisiae, the transposable elements (TEs) consist of LTR (Long Terminal Repeat) retrotransposons called Ty elements belonging to five families, Ty1 to Ty5. They take the form...

    Authors: Claudine Bleykasten-Grosshans, Anne Friedrich and Joseph Schacherer
    Citation: BMC Genomics 2013 14:399
    Content type: Research article Published on:

  48. Detecting genetic variation is a critical step in elucidating the molecular mechanisms underlying phenotypic diversity. Until recently, such detection has mostly focused on single nucleotide polymorphisms (SNP...

    Authors: Richard PMA Crooijmans, Mark S Fife, Tomas W Fitzgerald, Shurnevia Strickland, Hans H Cheng, Pete Kaiser, Richard Redon and Martien AM Groenen
    Citation: BMC Genomics 2013 14:398
    Content type: Research article Published on:

  49. Arachidonic acid (ArA) is important for human health because it is one of the major components of mammalian brain membrane phospholipids. The interest in ArA inspired the search for a new sustainable source, a...

    Authors: Long-Ling Ouyang, Si-Hong Chen, Yan Li and Zhi-Gang Zhou
    Citation: BMC Genomics 2013 14:396
    Content type: Research article Published on:

  50. Recent studies have illuminated the diversity of roles for microRNAs in cellular, developmental, and pathophysiological processes. The study of microRNAs in human liver tissue promises to clarify the therapeut...

    Authors: Eric R Gamazon, Federico Innocenti, Rongrong Wei, Libo Wang, Min Zhang, Snezana Mirkov, Jacqueline Ramírez, R Stephanie Huang, Nancy J Cox, Mark J Ratain and Wanqing Liu
    Citation: BMC Genomics 2013 14:395
    Content type: Research article Published on:

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BMC Genomics

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