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  1. The co-chaperone Hop [heat shock protein (HSP) organizing protein] has been shown to act as an adaptor for protein folding and maturation, in concert with Hsp70 and Hsp90. The hop gene is of eukaryotic origin. Li...

    Authors: Libia Catalina Salinas Castellanos, Jacques Chomilier and Jorge Hernández-Torres
    Citation: BMC Genomics 2015 16:573
    Content type: Research article Published on:

  3. The environmental light–dark cycle is the dominant cue that maintains 24-h biological rhythms in multicellular organisms. In Drosophila, light entrainment is mediated by the photosensitive protein CRYPTOCHROME, b...

    Authors: Adeolu B. Adewoye, Charalambos P. Kyriacou and Eran Tauber
    Citation: BMC Genomics 2015 16:570
    Content type: Research article Published on:

  4. Next-Generation Sequencing (NGS) technologies have rapidly advanced our understanding of human variation in cancer. To accurately translate the raw sequencing data into practical knowledge, annotation tools, a...

    Authors: Lei Wei, Lu T. Liu, Jacob R. Conroy, Qiang Hu, Jeffrey M. Conroy, Carl D. Morrison, Candace S. Johnson, Jianmin Wang and Song Liu
    Citation: BMC Genomics 2015 16:569
    Content type: Software Published on:

  5. Color polymorphism in the nacre of pteriomorphian bivalves is of great interest for the pearl culture industry. The nacreous layer of the Polynesian black-lipped pearl oyster Pinctada margaritifera exhibits a lar...

    Authors: Sarah Lemer, Denis Saulnier, Yannick Gueguen and Serge Planes
    Citation: BMC Genomics 2015 16:568
    Content type: Research article Published on:

  6. Detection of genes evolving under positive Darwinian evolution in genome-scale data is nowadays a prevailing strategy in comparative genomics studies to identify genes potentially involved in adaptation proces...

    Authors: Jorge A. Hongo, Giovanni M. de Castro, Leandro C. Cintra, Adhemar Zerlotini and Francisco P. Lobo
    Citation: BMC Genomics 2015 16:567
    Content type: Software Published on:

  7. Measuring allele-specific RNA expression provides valuable insights into cis-acting genetic and epigenetic regulation of gene expression. Widespread adoption of high-throughput sequencing technologies for studyin...

    Authors: Rong Lu, Ryan M Smith, Michal Seweryn, Danxin Wang, Katherine Hartmann, Amy Webb, Wolfgang Sadee and Grzegorz A Rempala
    Citation: BMC Genomics 2015 16:566
    Content type: Methodology article Published on:

  8. Eggshell is subject to quality loss with aging process of laying hens, and damaged eggshells result in economic losses of eggs. However, the genetic architecture underlying the dynamic eggshell quality remains...

    Authors: Congjiao Sun, Liang Qu, Guoqiang Yi, Jingwei Yuan, Zhongyi Duan, Manman Shen, Lujiang Qu, Guiyun Xu, Kehua Wang and Ning Yang
    Citation: BMC Genomics 2015 16:565
    Content type: Research article Published on:

  9. Coho salmon (Oncorhynchus kisutch) transgenic for growth hormone (Gh) express Gh in multiple tissues which results in increased appetite and continuous high growth with satiation feeding. Restricting Gh-transgeni...

    Authors: Daniel Garcia de la serrana, Robert H Devlin and Ian A Johnston
    Citation: BMC Genomics 2015 16:564
    Content type: Research article Published on:

  10. Mating is a complex process, which is frequently associated with behavioural and physiological changes. However, understanding of the genetic underpinnings of these changes is limited. Honey bees are both a mo...

    Authors: Fabio Manfredini, Mark J F Brown, Vanina Vergoz and Benjamin P Oldroyd
    Citation: BMC Genomics 2015 16:563
    Content type: Research article Published on:

  11. Small insertions and deletions (InDels) constitute the second most abundant class of genetic variants and have been found to be associated with many traits and diseases. The present study reports on the detect...

    Authors: Clarissa Boschiero, Almas A. Gheyas, Hannah K. Ralph, Lel Eory, Bob Paton, Richard Kuo, Janet Fulton, Rudolf Preisinger, Pete Kaiser and David W. Burt
    Citation: BMC Genomics 2015 16:562
    Content type: Research article Published on:

  12. Mango fruits contain a broad spectrum of phenolic compounds which impart potential health benefits; their biosynthesis is catalysed by enzymes in the phenylpropanoid-flavonoid (PF) pathway. The aim of this stu...

    Authors: Van L. T. Hoang, David J. Innes, P. Nicholas Shaw, Gregory R. Monteith, Michael J. Gidley and Ralf G. Dietzgen
    Citation: BMC Genomics 2015 16:561
    Content type: Research article Published on:

  13. Major secondary metabolites, including flavonoids, caffeine, and theanine, are important components of tea products and are closely related to the taste, flavor, and health benefits of tea. Secondary metabolit...

    Authors: Chun-Fang Li, Yan Zhu, Yao Yu, Qiong-Yi Zhao, Sheng-Jun Wang, Xin-Chao Wang, Ming-Zhe Yao, Da Luo, Xuan Li, Liang Chen and Ya-Jun Yang
    Citation: BMC Genomics 2015 16:560
    Content type: Research article Published on:

  14. Formalin-fixed, paraffin-embedded (FFPE) tissues represent the most abundant resource of archived human specimens in pathology. Such tissue specimens are emerging as a highly valuable resource for translationa...

    Authors: J. Weißer, Z. W. Lai, P. Bronsert, M. Kuehs, V. Drendel, S. Timme, S. Kuesters, C. A. Jilg, U. F. Wellner, S. Lassmann, M. Werner, M. L. Biniossek and O. Schilling
    Citation: BMC Genomics 2015 16:559
    Content type: Methodology article Published on:

  15. Despite a number of recent reports of insect resistance to transgenic crops expressing insecticidal toxins from Bacillus thuringiensis (Bt), little is known about the mechanism of resistance to these toxins. The ...

    Authors: Neetha Nanoth Vellichirammal, Haichuan Wang, Seong-il Eyun, Etsuko N. Moriyama, Brad S. Coates, Nicholas J. Miller and Blair D. Siegfried
    Citation: BMC Genomics 2015 16:558
    Content type: Research article Published on:

  16. The filamentous cyanobacterium Nostoc sp. strain PCC 7120 can fix N2 when combined nitrogen is not available. Furthermore, it has to cope with reactive oxygen species generated as byproducts of photosynthesis and...

    Authors: Fan Yingping, Sylvain Lemeille, Andrés González, Véronique Risoul, Yann Denis, Pierre Richaud, Otmane Lamrabet, Maria F Fillat, Cheng-Cai Zhang and Amel Latifi
    Citation: BMC Genomics 2015 16:557
    Content type: Research article Published on:

  17. Evidence is accumulating that perturbation of early life microbial colonization of the gut induces long-lasting adverse health effects in individuals. Understanding the mechanisms behind these effects will fac...

    Authors: Nirupama Benis, Dirkjan Schokker, Maria Suarez-Diez, Vitor AP Martins dos Santos, Hauke Smidt and Mari A Smits
    Citation: BMC Genomics 2015 16:556
    Content type: Research article Published on:

  18. Trifoliate orange (Poncirus trifoliata (L.) Raf.) is extremely cold hardy after a full acclimation; however the underlying molecular mechanisms underlying this economically valuable trait remain poorly understood...

    Authors: Min Wang, Xiaona Zhang and Ji-Hong Liu
    Citation: BMC Genomics 2015 16:555
    Content type: Research article Published on:

  19. One of the most important global pathogens infecting all age groups is Streptococcus pneumoniae (the ‘pneumococcus’). Pneumococci reside in the paediatric nasopharynx, where they compete for space and resources, ...

    Authors: Carlijn Bogaardt, Andries J van Tonder and Angela B Brueggemann
    Citation: BMC Genomics 2015 16:554
    Content type: Research article Published on:

  20. Two major mycoparasitic lineages, the family Hypocreaceae and the genus Tolypocladium, exist within the fungal order, Hypocreales. Peptaibiotics are a group of secondary metabolites almost exclusively described f...

    Authors: C. Alisha Quandt, Kathryn E. Bushley and Joseph W. Spatafora
    Citation: BMC Genomics 2015 16:553
    Content type: Research article Published on:

  23. Vernalization is an obligatory requirement of extended exposure to low temperatures to induce flowering in certain plants. It is the most important factor affecting flowering time and quality in Easter lily (Lili...

    Authors: Carlos Villacorta-Martin, Francisco F. Núñez de Cáceres González, Jorn de Haan, Kitty Huijben, Paul Passarinho, Maya Lugassi-Ben Hamo and Michele Zaccai
    Citation: BMC Genomics 2015 16:550
    Content type: Research article Published on:

  24. The role of viruses as members of the human microbiome has gained broader attention with the discovery that human body surfaces are inhabited by sizeable viral communities. The majority of the viruses identifi...

    Authors: Tasha M. Santiago-Rodriguez, Mayuri Naidu, Shira R. Abeles, Tobias K. Boehm, Melissa Ly and David T. Pride
    Citation: BMC Genomics 2015 16:549
    Content type: Research article Published on:

  25. Massively parallel cDNA sequencing (RNA-seq) experiments are gradually superseding microarrays in quantitative gene expression profiling. However, many biologists are uncertain about the choice of differential...

    Authors: Anto P. Rajkumar, Per Qvist, Ross Lazarus, Francesco Lescai, Jia Ju, Mette Nyegaard, Ole Mors, Anders D. Børglum, Qibin Li and Jane H. Christensen
    Citation: BMC Genomics 2015 16:548
    Content type: Research article Published on:

  26. Although the responses to many pathogen associated molecular patterns (PAMPs) in cell cultures and extracted organs are well characterized, there is little known of transcriptome responses to PAMPs in whole or...

    Authors: Shuxin Yang, Rubén Marín-Juez, Annemarie H. Meijer and Herman P. Spaink
    Citation: BMC Genomics 2015 16:547
    Content type: Research article Published on:

  27. Silene latifolia represents one of the best-studied plant sex chromosome systems. A new approach using RNA-seq data has recently identified hundreds of new sex-linked genes in this spe...

    Authors: N Blavet, H Blavet, A Muyle, J Käfer, R Cegan, C Deschamps, N Zemp, S Mousset, S Aubourg, R Bergero, D Charlesworth, R Hobza, A Widmer and GAB Marais
    Citation: BMC Genomics 2015 16:546
    Content type: Research article Published on:

  28. Nr2e1 (nuclear receptor subfamily 2, group e, member 1) encodes a transcription factor important in neocortex development. Previous work has shown that nuclear receptors can have hundr...

    Authors: Jean-François Schmouth, David Arenillas, Ximena Corso-Díaz, Yuan-Yun Xie, Slavita Bohacec, Kathleen G. Banks, Russell J. Bonaguro, Siaw H. Wong, Steven J. M. Jones, Marco A. Marra, Elizabeth M. Simpson and Wyeth W. Wasserman
    Citation: BMC Genomics 2015 16:545
    Content type: Research article Published on:

  29. Accurate genome assembly and gene model annotation are critical for comparative species and gene functional analyses. Here we present the completed genome sequence and annotation of the reference strain PH-1 of F...

    Authors: Robert King, Martin Urban, Michael C. U. Hammond-Kosack, Keywan Hassani-Pak and Kim E. Hammond-Kosack
    Citation: BMC Genomics 2015 16:544
    Content type: Research article Published on:

  30. Serine/threonine kinase 33 (STK33) has been shown to be conserved across all major vertebrate classes including reptiles, mammals, amphibians and fish, suggesting its importance within vertebrates. It has been...

    Authors: Tobias Lautwein, Steffen Lerch, Daniel Schäfer and Erwin R. Schmidt
    Citation: BMC Genomics 2015 16:543
    Content type: Research article Published on:

  31. Recent developments in sequencing technology have facilitated widespread investigations of genomic variants, including continuous stretches of homozygous genomic regions. For cattle, a large proportion of thes...

    Authors: Qianqian Zhang, Bernt Guldbrandtsen, Mirte Bosse, Mogens S Lund and Goutam Sahana
    Citation: BMC Genomics 2015 16:542
    Content type: Research article Published on:

  32. There is a limited capacity to repair damage in the mammalian heart after birth, which is primarily due to the inability of cardiomyocytes to proliferate after birth. This is in contrast to zebrafish and salam...

    Authors: Janna L Morrison, Song Zhang, Ross L Tellam, Doug A Brooks, I Caroline McMillen, Enzo R Porrello and Kimberley J Botting
    Citation: BMC Genomics 2015 16:541
    Content type: Research article Published on:

  33. Defence mechanisms of organisms are shaped by their lifestyle, environment and pathogen pressure. Carpenter ants are social insects which live in huge colonies comprising genetically closely related individual...

    Authors: Shishir K. Gupta, Maria Kupper, Carolin Ratzka, Heike Feldhaar, Andreas Vilcinskas, Roy Gross, Thomas Dandekar and Frank Förster
    Citation: BMC Genomics 2015 16:540
    Content type: Research article Published on:

  34. Plant growth-promoting rhizobacteria (PGPR) can protect plants against pathogenic microbes through a diversity of mechanisms including competition for nutrients, production of antibiotics, and stimulation of t...

    Authors: Roeland L. Berendsen, Marcel C. van Verk, Ioannis A. Stringlis, Christos Zamioudis, Jan Tommassen, Corné M. J. Pieterse and Peter A. H. M. Bakker
    Citation: BMC Genomics 2015 16:539
    Content type: Research article Published on:

  35. Comparative evolutionary analysis of whole genomes requires not only accurate annotation of gene space, but also proper annotation of the repetitive fraction which is often the largest component of most if not...

    Authors: Dario Copetti, Jianwei Zhang, Moaine El Baidouri, Dongying Gao, Jun Wang, Elena Barghini, Rosa M. Cossu, Angelina Angelova, Carlos E. Maldonado L., Stefan Roffler, Hajime Ohyanagi, Thomas Wicker, Chuanzhu Fan, Andrea Zuccolo, Mingsheng Chen, Antonio Costa de Oliveira…
    Citation: BMC Genomics 2015 16:538
    Content type: Methodology article Published on:

  36. Wine produced at low temperature is often considered to improve sensory qualities. However, there are certain drawbacks to low temperature fermentations: e.g. low growth rate, long lag phase, and sluggish or s...

    Authors: María López-Malo, Estéfani García-Rios, Bruno Melgar, Monica R Sanchez, Maitreya J Dunham and José Manuel Guillamón
    Citation: BMC Genomics 2015 16:537
    Content type: Research article Published on:

  37. Differences in gene expression have a significant role in the diversity of phenotypes in humans. Here we integrated human public data from ENCODE, 1000 Genomes and Geuvadis to explore the populational landscap...

    Authors: André M. Ribeiro-dos-Santos, Vandeclécio L. da Silva, Jorge E.S. de Souza and Sandro J. de Souza
    Citation: BMC Genomics 2015 16:536
    Content type: Research article Published on:

  38. Major histocompatibility complex (MHC) class I genes are found in the genomes of all jawed vertebrates. The evolution of this gene family is closely tied to the evolution of the vertebrate genome. Family membe...

    Authors: Anthony T Papenfuss, Zhi-Ping Feng, Katina Krasnec, Janine E Deakin, Michelle L Baker and Robert D Miller
    Citation: BMC Genomics 2015 16:535
    Content type: Research article Published on:

  39. Sweet sorghum is an annual C4 crop considered to be one of the most promising bio-energy crops due to its high sugar content in stem, yet it is poorly understood how this plant increases its sugar content in r...

    Authors: Na Sui, Zhen Yang, Mingli Liu and Baoshan Wang
    Citation: BMC Genomics 2015 16:534
    Content type: Research article Published on:

  40. Protein phosphorylation regulated by plant hormone is involved in the coordination of fundamental plant development. Brassinosteroids (BRs), a group of phytohormones, regulated phosphorylation dynamics remains...

    Authors: Li-Ling Lin, Chia-Lang Hsu, Chia-Wei Hu, Shiao-Yun Ko, Hsu-Liang Hsieh, Hsuan-Cheng Huang and Hsueh-Fen Juan
    Citation: BMC Genomics 2015 16:533
    Content type: Research article Published on:

  41. Insects use pheromones, chemical signals that underlie all animal behaviors, for communication and for attracting mates. Synthetic pheromones are widely used in pest control strategies because they are environ...

    Authors: Binu Antony, Alan Soffan, Jernej Jakše, Sulieman Alfaifi, Koko D. Sutanto, Saleh A. Aldosari, Abdulrahman S. Aldawood and Arnab Pain
    Citation: BMC Genomics 2015 16:532
    Content type: Research article Published on:

  42. Entomopathogenic associations between nematodes in the genera Steinernema and Heterorhabdus with their cognate bacteria from the bacterial genera Xenorhabdus and Photorhabdus, respectively, are extensively studie...

    Authors: Feseha Abebe-Akele, Louis S. Tisa, Vaughn S. Cooper, Philip J. Hatcher, Eyualem Abebe and W. Kelley Thomas
    Citation: BMC Genomics 2015 16:531
    Content type: Research article Published on:

  43. Genome-wide association studies show that most human traits and diseases are caused by a combination of environmental and genetic causes, with each one of these having a relatively small effect. In contrast, m...

    Authors: Miguel Angel Varela
    Citation: BMC Genomics 2015 16:530
    Content type: Research article Published on:

  44. The airway epithelial cell plays a central role in coordinating the pulmonary response to injury and inflammation. Here, transforming growth factor-β (TGFβ) activates gene expression programs to induce stem ce...

    Authors: Bing Tian, Xueling Li, Mridul Kalita, Steven G. Widen, Jun Yang, Suresh K. Bhavnani, Bryant Dang, Andrzej Kudlicki, Mala Sinha, Fanping Kong, Thomas G. Wood, Bruce A. Luxon and Allan R. Brasier
    Citation: BMC Genomics 2015 16:529
    Content type: Research article Published on:

  45. Most microbial eukaryotes are uncultivated and thus poorly suited to standard genomic techniques. This is the case for Polykrikos lebouriae, a dinoflagellate with ultrastructurally aberrant plastids. It has been ...

    Authors: Gregory S. Gavelis, Richard A. White III, Curtis A. Suttle, Patrick J. Keeling and Brian S. Leander
    Citation: BMC Genomics 2015 16:528
    Content type: Research article Published on:

  46. Genome wide sequence analyses of malaria parasites from widely separated areas of the world have identified contrasting population structures and signatures of selection. To compare relatively closely situated...

    Authors: Craig W. Duffy, Samuel A. Assefa, James Abugri, Nicholas Amoako, Seth Owusu-Agyei, Thomas Anyorigiya, Bronwyn MacInnis, Dominic P. Kwiatkowski, David J. Conway and Gordon A. Awandare
    Citation: BMC Genomics 2015 16:527
    Content type: Research article Published on:

  48. Neurotransmitter signaling systems play crucial roles in multiple physiological and behavioral processes in insects. Genome wide analyses of de novo transcriptome sequencing and gene specific expression profiling...

    Authors: Gang Xu, Shun-Fan Wu, Ya-Su Wu, Gui-Xiang Gu, Qi Fang and Gong-Yin Ye
    Citation: BMC Genomics 2015 16:525
    Content type: Research article Published on:

  49. The Xanthomonas citri pv. citri (X. citri) is a phytopathogenic bacterium that infects different species of citrus plants where it causes canker disease. The adaptation to different habitats is related to the abi...

    Authors: Cristiane Tambascia Pereira, Alexandre Moutran, Melissa Fessel and Andrea Balan
    Citation: BMC Genomics 2015 16:524
    Content type: Research article Published on:

  50. Transcriptional enhancers are generally known to regulate gene transcription from afar. Their activation involves a series of changes in chromatin marks and recruitment of protein factors. These enhancers may ...

    Authors: Juan González-Vallinas, Amadís Pagès, Babita Singh and Eduardo Eyras
    Citation: BMC Genomics 2015 16:523
    Content type: Research article Published on:

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BMC Genomics

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