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  1. A region on Sus scrofa chromosome 4 (SSC4) surrounding single nucleotide polymorphism (SNP) marker WUR10000125 (WUR) has been reported to be strongly associated with both weight gain and serum viremia in pigs aft...

    Authors: Martine Schroyen, Christopher Eisley, James E. Koltes, Eric Fritz-Waters, Igseo Choi, Graham S. Plastow, Leluo Guan, Paul Stothard, Hua Bao, Arun Kommadath, James M. Reecy, Joan K. Lunney, Robert R. R. Rowland, Jack C. M. Dekkers and Christopher K. Tuggle
    Citation: BMC Genomics 2016 17:196
    Content type: Research article Published on:

  2. Sugarcane (Saccharum officinarum L.) is an important sugar crop which belongs to the grass family and can be used for fuel ethanol production. The growing demands for sugar and biofuel is asking for breeding a su...

    Authors: Ming Li, Zhaoxu Liang, Yuan Zeng, Yan Jing, Kaichao Wu, Jun Liang, Shanshan He, Guanyu Wang, Zhanghong Mo, Fang Tan, Song Li and Lunwang Wang
    Citation: BMC Genomics 2016 17:195
    Content type: Research article Published on:

  3. Female reproductive potential plays a significant role in the survival and stability of species, and sexual maturation and mating processes are crucial. However, our knowledge of the reproductive genes involve...

    Authors: Weiwei Zheng, Deye Luo, Fangyu Wu, Jialu Wang and Hongyu Zhang
    Citation: BMC Genomics 2016 17:194
    Content type: Research article Published on:

  5. Phosphorus is one of the most important macronutrients that is required for plant growth and development. However, stress under low-P conditions has become a limiting factor that affects crop yields and qualit...

    Authors: Qing Wang, Jiao Wang, Yuming Yang, Wenkai Du, Dan Zhang, Deyue Yu and Hao Cheng
    Citation: BMC Genomics 2016 17:192
    Content type: Research article Published on:

  6. Soil-borne fungi of the Fusarium oxysporum species complex cause devastating wilt disease on many crops including legumes that supply human dietary protein needs across many parts of the globe. We present and com...

    Authors: Angela H. Williams, Mamta Sharma, Louise F. Thatcher, Sarwar Azam, James K. Hane, Jana Sperschneider, Brendan N. Kidd, Jonathan P. Anderson, Raju Ghosh, Gagan Garg, Judith Lichtenzveig, H. Corby Kistler, Terrance Shea, Sarah Young, Sally-Anne G. Buck, Lars G. Kamphuis…
    Citation: BMC Genomics 2016 17:191
    Content type: Research article Published on:

  7. The ability of Mycobacterium tuberculosis to establish a latent infection (LTBI) in humans confounds the treatment of tuberculosis. Consequently, there is a need to discover new therapeutic agents that can kill M...

    Authors: Andrej Benjak, Swapna Uplekar, Ming Zhang, Jérémie Piton, Stewart T. Cole and Claudia Sala
    Citation: BMC Genomics 2016 17:190
    Content type: Research article Published on:

  8. Nuclear proteins play critical roles in regulating mRNA transcription and processing, DNA replication, and epigenetic genome modification. Therefore, the ability to monitor changes in nuclear proteins is helpf...

    Authors: Xinyou Cao, Xueyan Chen, Yangna Liu, Zhaoshi Xu, Liancheng Li, Yongbin Zhou, Jianjun Liu, Zhendong Zhao, Ming Chen and Youzhi Ma
    Citation: BMC Genomics 2016 17:189
    Content type: Research article Published on:

  9. Astragalus membranaceus Bge. var. mongolicus (Bge.) Hsiao (A. mongolicus) is an important traditional Chinese herb that is cultivated on a large scale in northwestern China. Understand...

    Authors: Xin Jia, Chuangshu Sun, Yongchun Zuo, Guangyue Li, Guobin Li, Liangyu Ren and Guilin Chen
    Citation: BMC Genomics 2016 17:188
    Content type: Research article Published on:

  10. De novo reference assemblies that are affordable, practical to produce, and of sufficient quality for most downstream applications, remain an unattained goal for many taxa. Insects, wh...

    Authors: R. Rebecca Love, Neil I. Weisenfeld, David B. Jaffe, Nora J. Besansky and Daniel E. Neafsey
    Citation: BMC Genomics 2016 17:187
    Content type: Research article Published on:

  11. Aluminium (Al) toxicity is the main factor limiting the crop production in acid soils and barley (Hordeum vulgare L.) is one of the most Al-sensitive of the small-grained cereals. The major gene for Al tolerance ...

    Authors: Yanling Ma, Chengdao Li, Peter R. Ryan, Sergey Shabala, Jianfeng You, Jie Liu, Chunji Liu and Meixue Zhou
    Citation: BMC Genomics 2016 17:186
    Content type: Research article Published on:

  12. Gene expression is to large degree regulated by the specific binding of protein transcription factors to cis-regulatory transcription factor binding sites in gene promoter regions. Despite the identification o...

    Authors: Monika Lis and Dirk Walther
    Citation: BMC Genomics 2016 17:185
    Content type: Research article Published on:

    The Erratum to this article has been published in BMC Genomics 2016 17:310

  13. Low fertility remains a leading cause of poor productivity in dairy cattle. In this context, there is significant interest in developing novel tools for accurate early diagnosis of pregnancy. MicroRNAs (miRNAs...

    Authors: Jason Ioannidis and F. Xavier Donadeu
    Citation: BMC Genomics 2016 17:184
    Content type: Research article Published on:

  14. The formation of the pre-initiation complex in eukaryotic genes is a key step in transcription initiation. The TATA-binding protein (TBP) is a universal component of all pre-initiation complexes for all kinds ...

    Authors: Natalia Gómez-Navarro, Antonio Jordán-Pla, Francisco Estruch and José E. Pérez-Ortín
    Citation: BMC Genomics 2016 17:183
    Content type: Research article Published on:

  15. The phytoflagellated protozoan, Euglena gracilis, has been proposed as an attractive feedstock for the accumulation of valuable compounds such as β-1,3-glucan, also known as paramylon, and wax esters. The product...

    Authors: Yuta Yoshida, Takuya Tomiyama, Takanori Maruta, Masaru Tomita, Takahiro Ishikawa and Kazuharu Arakawa
    Citation: BMC Genomics 2016 17:182
    Content type: Research article Published on:

  16. Alternative splicing provides a major mechanism to generate protein diversity. Increasing evidence suggests a link of dysregulation of splicing associated with cancer. While previous genomic-based studies demo...

    Authors: Wei Zhao, Katherine A. Hoadley, Joel S. Parker and Charles M. Perou
    Citation: BMC Genomics 2016 17:181
    Content type: Research article Published on:

  17. Clostridium botulinum is a diverse group of bacteria characterized by the production of botulinum neurotoxin. Botulinum neurotoxins are classified into serotypes (BoNT/A–G), which are ...

    Authors: Charles H. D. Williamson, Jason W. Sahl, Theresa J. Smith, Gary Xie, Brian T. Foley, Leonard A. Smith, Rafael A. Fernández, Miia Lindström, Hannu Korkeala, Paul Keim, Jeffrey Foster and Karen Hill
    Citation: BMC Genomics 2016 17:180
    Content type: Research article Published on:

  18. Staphylococcus aureus (S. aureus) infections range in severity due to expression of certain virulence factors encoded on mobile genetic elements (MGE). As such, characterization of the...

    Authors: Richard W. Davis IV, Andrew D. Brannen, Mohammad J. Hossain, Scott Monsma, Paul E. Bock, Matthias Nahrendorf, David Mead, Michael Lodes, Mark R. Liles and Peter Panizzi
    Citation: BMC Genomics 2016 17:179
    Content type: Research article Published on:

  19. Plant architecture attributes, such as plant height, ear height, and internode number, have played an important role in the historical increases in grain yield, lodging resistance, and biomass in maize (Zea mays ...

    Authors: Zhiqiang Zhou, Chaoshu Zhang, Yu Zhou, Zhuanfang Hao, Zhenhua Wang, Xing Zeng, Hong Di, Mingshun Li, Degui Zhang, Hongjun Yong, Shihuang Zhang, Jianfeng Weng and Xinhai Li
    Citation: BMC Genomics 2016 17:178
    Content type: Research article Published on:

  21. For the last decade the conceptual framework of the Genome-Wide Association Study (GWAS) has dominated the investigation of human disease and other complex traits. While GWAS have been successful in identifyin...

    Authors: Matthew P. Salomon, Wai Lok Sibon Li, Christopher K. Edlund, John Morrison, Barbara K. Fortini, Aung Ko Win, David V. Conti, Duncan C. Thomas, David Duggan, Daniel D. Buchanan, Mark A. Jenkins, John L. Hopper, Steven Gallinger, Loïc Le Marchand, Polly A. Newcomb, Graham Casey…
    Citation: BMC Genomics 2016 17:176
    Content type: Research article Published on:

  22. The type-2C protein phosphatases (PP2Cs), negatively regulating ABA responses and MAPK cascade pathways, play important roles in stress signal transduction in plants. Brachypodium distachyon is a new model plant ...

    Authors: Jianmei Cao, Min Jiang, Peng Li and Zhaoqing Chu
    Citation: BMC Genomics 2016 17:175
    Content type: Research article Published on:

  24. The DNA base composition is well known to be highly variable among organisms. Bio-physic studies on the effect of the GC increments on the DNA structure have shown that GC-richer DNA sequences are more bendabl...

    Authors: Andrea Tarallo, Claudia Angelini, Remo Sanges, Mitsuharu Yagi, Claudio Agnisola and Giuseppe D’Onofrio
    Citation: BMC Genomics 2016 17:173
    Content type: Research article Published on:

  25. Aphids are phloem-feeding insects that cause significant economic losses to agriculture worldwide. While feeding and probing these insects deliver molecules, called effectors, inside their host to enable infes...

    Authors: Peter Thorpe, Peter J. A. Cock and Jorunn Bos
    Citation: BMC Genomics 2016 17:172
    Content type: Research article Published on:

  26. The distributions of species and their responses to climate change are in part determined by their thermal tolerances. However, little is known about how thermal tolerance evolves. To test whether evolutionary...

    Authors: John Stanton-Geddes, Andrew Nguyen, Lacy Chick, James Vincent, Mahesh Vangala, Robert R. Dunn, Aaron M. Ellison, Nathan J. Sanders, Nicholas J. Gotelli and Sara Helms Cahan
    Citation: BMC Genomics 2016 17:171
    Content type: Research article Published on:

  27. Exome sequencing has been utilized to identify genetic variants associated with disease in humans. Identification of loss-of-function mutations with exome sequencing in rhesus macaques (Macaca mulatta) could lead...

    Authors: Adam S. Cornish, Robert M. Gibbs and Robert B. Norgren Jr.
    Citation: BMC Genomics 2016 17:170
    Content type: Research article Published on:

  30. The Major Histocompatibility Complex (MHC) is a genomic region containing genes with crucial roles in immune responses. MHC class I and class II genes encode antigen-presenting molecules expressed on the cell ...

    Authors: Martin Plasil, Elmira Mohandesan, Robert R. Fitak, Petra Musilova, Svatava Kubickova, Pamela A. Burger and Petr Horin
    Citation: BMC Genomics 2016 17:167
    Content type: Research article Published on:

  31. Nematodes are the most numerous animals in the soil. Insect parasitic nematodes of the genus Heterorhabditis are capable of selectively seeking, infecting and killing their insect-hosts in the soil. The infective...

    Authors: Vishal S. Somvanshi, Shachi Gahoi, Prakash Banakar, Prasoon Kumar Thakur, Mukesh Kumar, Manisha Sajnani, Priyatama Pandey and Uma Rao
    Citation: BMC Genomics 2016 17:166
    Content type: Research article Published on:

  32. Bioinformatics tools available for metagenomic sequencing analysis are principally devoted to the identification of microorganisms populating an ecological niche, but they usually do not consider viruses. Only...

    Authors: Simone Rampelli, Matteo Soverini, Silvia Turroni, Sara Quercia, Elena Biagi, Patrizia Brigidi and Marco Candela
    Citation: BMC Genomics 2016 17:165
    Content type: Software Published on:

  33. MicroRNAs (miRNAs) have emerged as important post-transcriptional regulators of gene expression in a wide variety of physiological processes. They can control both temporal and spatial gene expression and are ...

    Authors: Amelie Juanchich, Philippe Bardou, Olivier Rué, Jean-Charles Gabillard, Christine Gaspin, Julien Bobe and Yann Guiguen
    Citation: BMC Genomics 2016 17:164
    Content type: Research article Published on:

  34. Restricted and Repetitive Behaviors (RRB), one of the core symptom categories for Autism Spectrum Disorders (ASD), comprises heterogeneous groups of behaviors. Previous research indicates that there are two or...

    Authors: Yu Tao, Hui Gao, Benjamin Ackerman, Wei Guo, David Saffen and Yin Yao Shugart
    Citation: BMC Genomics 2016 17:163
    Content type: Research article Published on:

  35. The nuclear orphan receptor Nur77 (NR4A1, TR3, or NGFI-B) has been shown to modulate the inflammatory response of macrophages. To further elucidate the role of Nur77 in macrophage physiology, we compared the t...

    Authors: Anouk A. J. Hamers, Carmen Argmann, Perry D. Moerland, Duco S. Koenis, Goran Marinković, Milka Sokolović, Alex F. de Vos, Carlie J. M. de Vries and Claudia M. van Tiel
    Citation: BMC Genomics 2016 17:162
    Content type: Research article Published on:

  36. The clawed African frog Xenopus laevis has been one of the main vertebrate models for studies in developmental biology. However, for genetic studies, Xenopus tropicalis has been the experimental model of choice b...

    Authors: Gonzalo Riadi, Francisco Ossandón, Juan Larraín and Francisco Melo
    Citation: BMC Genomics 2016 17:161
    Content type: Research article Published on:

  38. Understanding gene expression across the diverse metazoan cell types during development is critical to understanding their function and regulation. However, most cell types have not been assayed for expression...

    Authors: Joshua Burdick, Travis Walton, Elicia Preston, Amanda Zacharias, Arjun Raj and John Isaac Murray
    Citation: BMC Genomics 2016 17:159
    Content type: Research article Published on:

  39. Sponges (Porifera) harbor distinct microbial consortia within their mesohyl interior. We herein analysed the hologenomes of Stylissa carteri and Xestospongia testudinaria, which notably differ in their microbiome...

    Authors: Taewoo Ryu, Loqmane Seridi, Lucas Moitinho-Silva, Matthew Oates, Yi Jin Liew, Charalampos Mavromatis, Xiaolei Wang, Annika Haywood, Feras F. Lafi, Marija Kupresanin, Rachid Sougrat, Majed A. Alzahrani, Emily Giles, Yanal Ghosheh, Celia Schunter, Sebastian Baumgarten…
    Citation: BMC Genomics 2016 17:158
    Content type: Research article Published on:

  40. The primate Y chromosome is distinguished by a lack of inter-chromosomal recombination along most of its length, extensive gene loss, and a prevalence of repetitive elements. A group of genes on the male-speci...

    Authors: Ana-Hermina Ghenu, Benjamin M. Bolker, Don J. Melnick and Ben J. Evans
    Citation: BMC Genomics 2016 17:157
    Content type: Research Article Published on:

  41. The potential for alternative plant protein sources to replace limited marine ingredients in fish feeds is important for the future of the fish farming industry. However, plant ingredients in fish feeds contai...

    Authors: Elżbieta Król, Alex Douglas, Douglas R. Tocher, Viv O. Crampton, John R. Speakman, Christopher J. Secombes and Samuel A. M. Martin
    Citation: BMC Genomics 2016 17:156
    Content type: Research article Published on:

  42. Copper dependent nitrite reductase, NirK, catalyses the key step in denitrification, i.e. nitrite reduction to nitric oxide. Distinct structural NirK classes and phylogenetic clades of NirK-type denitrifiers h...

    Authors: Decleyre Helen, Heylen Kim, Bjorn Tytgat and Willems Anne
    Citation: BMC Genomics 2016 17:155
    Content type: Research article Published on:

    The Erratum to this article has been published in BMC Genomics 2016 17:527

  43. Non-coding RNAs (ncRNAs), which perform diverse regulatory roles, have been found in organisms from all superkingdoms of life. However, there have been limited numbers of studies on the functions of ncRNAs, es...

    Authors: Yoo-Bok Cho, Eun Ju Lee, Suhyung Cho, Tae Yong Kim, Jin Hwan Park and Byung-Kwan Cho
    Citation: BMC Genomics 2016 17:154
    Content type: Research article Published on:

  44. Genome-wide association study (GWAS) is a useful tool for detecting and characterizing traits of interest including those associated with disease resistance in soybean. The availability of 50,000 single nucleo...

    Authors: Hao-Xun Chang, Patrick J. Brown, Alexander E. Lipka, Leslie L. Domier and Glen L. Hartman
    Citation: BMC Genomics 2016 17:153
    Content type: Research article Published on:

  45. Propionibacterium acnes and Staphylococcus epidermidis live in close proximity on human skin, and both bacterial species can be isolated from normal and acne vulgaris-affected skin sit...

    Authors: Gitte J. M. Christensen, Christian F. P. Scholz, Jan Enghild, Holger Rohde, Mogens Kilian, Andrea Thürmer, Elzbieta Brzuszkiewicz, Hans B. Lomholt and Holger Brüggemann
    Citation: BMC Genomics 2016 17:152
    Content type: Research article Published on:

  46. Approximately 10 % of the Mycobacterium tuberculosis genome is made up of two families of genes that are poorly characterized due to their high GC content and highly repetitive nature. The PE and PPE families are...

    Authors: Jody E. Phelan, Francesc Coll, Indra Bergval, Richard M. Anthony, Rob Warren, Samantha L. Sampson, Nicolaas C. Gey van Pittius, Judith R. Glynn, Amelia C. Crampin, Adriana Alves, Theolis Barbosa Bessa, Susana Campino, Keertan Dheda, Louis Grandjean, Rumina Hasan, Zahra Hasan…
    Citation: BMC Genomics 2016 17:151
    Content type: Research article Published on:

  47. The root architecture of grafted apple (Malus spp.) is affected by various characteristics of the scions. To provide information on the molecular mechanisms underlying this influence, we examined root transcripto...

    Authors: Guofang Li, Juanjuan Ma, Ming Tan, Jiangping Mao, Na An, Guangli Sha, Dong Zhang, Caiping Zhao and Mingyu Han
    Citation: BMC Genomics 2016 17:150
    Content type: Research article Published on:

  48. DNA methylation is an important epigenetic modification involved in many biological processes. Reduced representation bisulfite sequencing (RRBS) is a cost-effective method for studying DNA methylation at sing...

    Authors: Saurabh Baheti, Rahul Kanwar, Meike Goelzenleuchter, Jean-Pierre A. Kocher, Andreas S. Beutler and Zhifu Sun
    Citation: BMC Genomics 2016 17:149
    Content type: Methodology article Published on:

  49. Diet and particularly dietary fibres have an impact on the gut microbiome and play an important role in human health and disease. Pectin is a highly consumed dietary fibre found in fruits and vegetables and is...

    Authors: Jordane Despres, Evelyne Forano, Pascale Lepercq, Sophie Comtet-Marre, Grégory Jubelin, Carl J. Yeoman, Margret E. Berg Miller, Christopher J. Fields, Nicolas Terrapon, Carine Le Bourvellec, Catherine M.G.C. Renard, Bernard Henrissat, Bryan A. White and Pascale Mosoni
    Citation: BMC Genomics 2016 17:147
    Content type: Research article Published on:

    The Erratum to this article has been published in BMC Genomics 2016 17:426

  50. Zinc finger proteins (ZFPs) play an important role in regulating plant responses to abiotic stress. However, little is known about the function of LSD1-like-type ZFP in saline-alkaline (SA) stress resistance o...

    Authors: QJ Guan, HY Ma, ZJ Wang, ZY Wang, QY Bu and SK Liu
    Citation: BMC Genomics 2016 17:142
    Content type: Research article Published on:

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BMC Genomics

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