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  1. Growth in fishes is regulated via many environmental and physiological factors and is shaped by the genetic background of each individual. Previous microarray studies of salmonid growth have examined fish expe...

    Authors: Andrea L Kocmarek, Moira M Ferguson and Roy G Danzmann
    Citation: BMC Genomics 2014 15:57
    Content type: Research article Published on:

  2. Our interest in Candida albicans mitochondria began with the identification of GOA1. We demonstrated its role in cell energy production, cross-talk among mitochondria and peroxisomes, non-glucose energy metabolis...

    Authors: Kasra Khamooshi, Patricia Sikorski, Nuo Sun, Richard Calderone and Dongmei Li
    Citation: BMC Genomics 2014 15:56
    Content type: Research article Published on:

  3. Clonostachys rosea strain IK726 is a mycoparasitic fungus capable of controlling mycotoxin-producing Fusarium species, including F. graminearum and F. culmorum, known to produce Zearalenone (ZEA) and Deoxynivalen...

    Authors: Chatchai Kosawang, Magnus Karlsson, Dan Funck Jensen, Adiphol Dilokpimol and David B Collinge
    Citation: BMC Genomics 2014 15:55
    Content type: Research article Published on:

  4. Klebsiella pneumoniae is an important opportunistic pathogen associated with nosocomial and community-acquired infections. A wide repertoire of virulence and antimicrobial resistance genes is present in K. pneumo...

    Authors: Pablo Ivan Pereira Ramos, Renata Christina Picão, Luiz Gonzaga Paula de Almeida, Nicholas Costa B Lima, Raquel Girardello, Ana Carolina P Vivan, Danilo E Xavier, Fernando G Barcellos, Marsileni Pelisson, Eliana C Vespero, Claudine Médigue, Ana Tereza Ribeiro de Vasconcelos, Ana Cristina Gales and Marisa Fabiana Nicolás
    Citation: BMC Genomics 2014 15:54
    Content type: Research article Published on:

  6. The Illumina HumanMethylation450 BeadChip (HM450K) measures the DNA methylation of 485,512 CpGs in the human genome. The technology relies on hybridization of genomic fragments to probes on the chip. However, ...

    Authors: Haroon Naeem, Nicholas C Wong, Zac Chatterton, Matthew K H Hong, John S Pedersen, Niall M Corcoran, Christopher M Hovens and Geoff Macintyre
    Citation: BMC Genomics 2014 15:51
    Content type: Methodology article Published on:

  8. Maternal undernutrition leads to an increased risk of metabolic disorders in offspring including obesity and insulin resistance, thought to be due to a programmed thrifty phenotype which is inappropriate for a...

    Authors: Peter JI Ellis, Tiffany J Morris, Benjamin M Skinner, Carole A Sargent, Mark H Vickers, Peter D Gluckman, Stewart Gilmour and Nabeel A Affara
    Citation: BMC Genomics 2014 15:49
    Content type: Research article Published on:

  9. Mechanical stimulation is necessary for regulating correct formation of the skeleton. Here we test the hypothesis that mechanical stimulation of the embryonic skeletal system impacts expression levels of genes...

    Authors: Rebecca A Rolfe, Niamh C Nowlan, Elaine M Kenny, Paul Cormican, Derek W Morris, Patrick J Prendergast, Daniel Kelly and Paula Murphy
    Citation: BMC Genomics 2014 15:48
    Content type: Research article Published on:

  10. It is widely known that castration has a significant effect on the accumulation of adipose tissue. microRNAs (miRNAs) are known to be involved in fat deposition and to be regulated by the androgen-induced andr...

    Authors: Ying Bai, Jin-Ming Huang, Gang Liu, Ji-Bin Zhang, Jian-Ying Wang, Cheng-Kun Liu and Mei-Ying Fang
    Citation: BMC Genomics 2014 15:47
    Content type: Research article Published on:

  11. Protein subcellular localization is a central problem in understanding cell biology and has been the focus of intense research. In order to predict localization from amino acid sequence a myriad of features ha...

    Authors: Yoshinori Fukasawa, Ross KK Leung, Stephen KW Tsui and Paul Horton
    Citation: BMC Genomics 2014 15:46
    Content type: Research article Published on:

  13. Blood-sucking lice (suborder Anoplura) parasitize eutherian mammals with 67% of the 540 described species found on rodents. The five species of blood-sucking lice that infest humans and pigs have fragmented mi...

    Authors: Wen-Ge Dong, Simon Song, Dao-Chao Jin, Xian-Guo Guo and Renfu Shao
    Citation: BMC Genomics 2014 15:44
    Content type: Research article Published on:

  14. Low efficiency of Somatic Cell Nuclear Transfer (NT) has been widely addressed with high incidence of placental abnormalities due to genetic and epigenetic modifications. MiRNAs are shown to be major regulator...

    Authors: Md Munir Hossain, Dawit Tesfaye, Dessie Salilew-Wondim, Eva Held, Maren J Pröll, Franca Rings, Gregor Kirfel, Christian Looft, Ernst Tholen, Jasim Uddin, Karl Schellander and Michael Hoelker
    Citation: BMC Genomics 2014 15:43
    Content type: Research article Published on:

  15. Anopheles sinensis is an important mosquito vector of Plasmodium vivax, which is the most frequent and widely distributed cause of recurring malaria throughout Asia, and particularly in China, Korea, and Japan.

    Authors: Dan Zhou, Donghui Zhang, Guohui Ding, Linna Shi, Qing Hou, Yuting Ye, Yang Xu, Huayun Zhou, Chunrong Xiong, Shengdi Li, Jing Yu, Shanchao Hong, Xinyou Yu, Ping Zou, Chen Chen, Xuelian Chang…
    Citation: BMC Genomics 2014 15:42
    Content type: Research article Published on:

  16. Genomic structure variation (GSV) is widely distributed in various organisms and is an important contributor to human diversity and disease susceptibility. Efficient approaches to induce targeted genomic struc...

    Authors: Sanyuan Ma, Xiaogang Wang, Yuanyuan Liu, Jie Gao, Shengling Zhang, Run Shi, Jiasong Chang, Ping Zhao and Qingyou Xia
    Citation: BMC Genomics 2014 15:41
    Content type: Research article Published on:

  17. The major function of the ovary is to produce oocytes for fertilisation. Oocytes mature in follicles surrounded by nurturing granulosa cells and all are enclosed by a basal lamina. During growth, granulosa cel...

    Authors: Nicholas Hatzirodos, Katja Hummitzsch, Helen F Irving-Rodgers, Margaret L Harland, Stephanie E Morris and Raymond J Rodgers
    Citation: BMC Genomics 2014 15:40
    Content type: Research article Published on:

  18. Differentiation of primordial germ cells into mature spermatozoa proceeds through multiple stages, one of the most important of which is meiosis. Meiotic recombination is in turn a key part of meiosis. To achi...

    Authors: Gennady Margolin, Pavel P Khil, Joongbaek Kim, Marina A Bellani and R Daniel Camerini-Otero
    Citation: BMC Genomics 2014 15:39
    Content type: Research article Published on:

  19. The incidence of invasive disease caused by encapsulated Haemophilus influenzae type f (Hif) has increased in the post-H. influenzae type b (Hib) vaccine era. We previously annotated the first complete Hif genome...

    Authors: Yu-Ching Su, Fredrik Resman, Franziska Hörhold and Kristian Riesbeck
    Citation: BMC Genomics 2014 15:38
    Content type: Research article Published on:

  20. The main limitations in the analysis of viral metagenomes are perhaps the high genetic variability and the lack of information in extant databases. To address these issues, several bioinformatic tools have bee...

    Authors: Jorge F Vázquez-Castellanos, Rodrigo García-López, Vicente Pérez-Brocal, Miguel Pignatelli and Andrés Moya
    Citation: BMC Genomics 2014 15:37
    Content type: Research article Published on:

  21. Development of novel antibacterial drugs is both an urgent healthcare necessity and a partially neglected field. The last decades have seen a substantial decrease in the discovery of novel antibiotics, which c...

    Authors: Alejandro Panjkovich, Isidre Gibert and Xavier Daura
    Citation: BMC Genomics 2014 15:36
    Content type: Methodology article Published on:

  22. The majority of non-coding RNAs (ncRNAs) involved in mRNA metabolism in mammals have been believed to downregulate the corresponding mRNA expression level in a pre- or post-transcriptional manner by forming sh...

    Authors: Masahiro Uesaka, Osamu Nishimura, Yasuhiro Go, Kinichi Nakashima, Kiyokazu Agata and Takuya Imamura
    Citation: BMC Genomics 2014 15:35
    Content type: Research article Published on:

  23. Lichen is a classic mutualistic organism and the lichenization is one of the fungal symbioses. The lichen-forming fungus Endocarpon pusillum is living in symbiosis with the green alga Diplosphaera chodatii Bialsu...

    Authors: Yan-Yan Wang, Bin Liu, Xin-Yu Zhang, Qi-Ming Zhou, Tao Zhang, Hui Li, Yu-Fei Yu, Xiao-Ling Zhang, Xi-Yan Hao, Meng Wang, Lei Wang and Jiang-Chun Wei
    Citation: BMC Genomics 2014 15:34
    Content type: Research article Published on:

  24. Genomes of men and women differ in only a limited number of genes located on the sex chromosomes, whereas the transcriptome is far more sex-specific. Identification of sex-biased gene expression will contribut...

    Authors: Rick Jansen, Sandra Batista, Andrew I Brooks, Jay A Tischfield, Gonneke Willemsen, Gerard van Grootheest, Jouke-Jan Hottenga, Yuri Milaneschi, Hamdi Mbarek, Vered Madar, Wouter Peyrot, Jacqueline M Vink, Cor L Verweij, Eco JC de Geus, Johannes H Smit, Fred A Wright…
    Citation: BMC Genomics 2014 15:33
    Content type: Research article Published on:

  25. Subterranean mammals have been of great interest for evolutionary biologists because of their highly specialized traits for the life underground. Owing to the convergence of morphological traits and the incong...

    Authors: Gong-Hua Lin, Kun Wang, Xiao-Gong Deng, Eviatar Nevo, Fang Zhao, Jian-Ping Su, Song-Chang Guo, Tong-Zuo Zhang and Huabin Zhao
    Citation: BMC Genomics 2014 15:32
    Content type: Research article Published on:

  26. The purpose of this study was to sequence and assemble the tobacco mitochondrial transcriptome and obtain a genomic-level view of steady-state RNA abundance. Plant mitochondrial genomes have a small number of ...

    Authors: Benjamin T Grimes, Awa K Sisay, Hyrum D Carroll and A Bruce Cahoon
    Citation: BMC Genomics 2014 15:31
    Content type: Research article Published on:

  27. Environmental factors during perinatal development may influence developmental plasticity and disease susceptibility via alterations to the epigenome. Developmental exposure to the endocrine active compound, b...

    Authors: Jung H Kim, Maureen A Sartor, Laura S Rozek, Christopher Faulk, Olivia S Anderson, Tamara R Jones, Muna S Nahar and Dana C Dolinoy
    Citation: BMC Genomics 2014 15:30
    Content type: Research article Published on:

  28. The cultivated bread wheat (Triticum aestivum L.) possesses unique flour quality, which can be processed into many end-use food products such as bread, pasta, chapatti (unleavened flat bread), biscuit, etc. The p...

    Authors: Anuradha Singh, Shrikant Mantri, Monica Sharma, Ashok Chaudhury, Rakesh Tuli and Joy Roy
    Citation: BMC Genomics 2014 15:29
    Content type: Research article Published on:

  29. Negative energy balance (NEB), an altered metabolic state, occurs in early postpartum dairy cattle when energy demands to support lactation exceed energy intake. During NEB the liver undergoes oxidative stress...

    Authors: Attia Fatima, Sinead Waters, Padraig O’Boyle, Cathal Seoighe and Dermot G Morris
    Citation: BMC Genomics 2014 15:28
    Content type: Research article Published on:

  30. A protein may bind to its target DNA sites constitutively, i.e., regardless of cell type. Intuitively, constitutive binding sites should be biologically functional. A prerequisite for understanding their funct...

    Authors: Yuanyuan Li, David M Umbach and Leping Li
    Citation: BMC Genomics 2014 15:27
    Content type: Methodology article Published on:

  31. Sporeformers in the order Bacillales are important contributors to spoilage of pasteurized milk. While only a few Bacillus and Viridibacillus strains can grow in milk at 6°C, the majority of Paenibacillus isolate...

    Authors: Andrea I Moreno Switt, Alexis D Andrus, Matthew L Ranieri, Renato H Orsi, Reid Ivy, Henk C den Bakker, Nicole H Martin, Martin Wiedmann and Kathryn J Boor
    Citation: BMC Genomics 2014 15:26
    Content type: Research article Published on:

  32. In plants, microRNAs (miRNAs) are endogenous ~22 nt RNAs that play important regulatory roles in many aspects of plant biology, including metabolism, hormone response, epigenetic control of transposable elemen...

    Authors: Hongjun Liu, Cheng Qin, Zhe Chen, Tao Zuo, Xuerong Yang, Huangkai Zhou, Meng Xu, Shiliang Cao, Yaou Shen, Haijian Lin, Xiujing He, Yinchao Zhang, Lujiang Li, Haiping Ding, Thomas Lübberstedt, Zhiming Zhang…
    Citation: BMC Genomics 2014 15:25
    Content type: Research article Published on:

  33. At later stages of folliculogenesis, the mammalian ovarian follicle contains layers of epithelial granulosa cells surrounding an antral cavity. During follicle development granulosa cells replicate, secrete ho...

    Authors: Nicholas Hatzirodos, Helen F Irving-Rodgers, Katja Hummitzsch, Margaret L Harland, Stephanie E Morris and Raymond J Rodgers
    Citation: BMC Genomics 2014 15:24
    Content type: Research article Published on:

  34. Chlamydia pecorum is the causative agent of a number of acute diseases, but most often causes persistent, subclinical infection in ruminants, swine and birds. In this study, the genome sequences of three C. pecor...

    Authors: Michelle Sait, Morag Livingstone, Ewan M Clark, Nick Wheelhouse, Lucy Spalding, Bryan Markey, Simone Magnino, Frederick A Lainson, Garry SA Myers and David Longbottom
    Citation: BMC Genomics 2014 15:23
    Content type: Research article Published on:

  35. The field of genomics is often cited as the branch of biology that has led the way in data sharing. In most cases, sequencing data are made publicly available immediately after generation and often before the ...

    Authors: Shreeya Nanda and Maria K Kowalczuk
    Citation: BMC Genomics 2014 15:5
    Content type: Editorial Published on:

  36. The CRP-family transcription factor NtcA, universally found in cyanobacteria, was initially discovered as a regulator operating N control. It responds to the N regime signaled by the internal 2-oxoglutarate le...

    Authors: Silvia Picossi, Enrique Flores and Antonia Herrero
    Citation: BMC Genomics 2014 15:22
    Content type: Research article Published on:

  37. Chromosome ends are composed of telomeric repeats and subtelomeric regions, which are patchworks of genes interspersed with repeated elements. Although chromosome ends display similar arrangements in different...

    Authors: María C Dalmasso, Santiago J Carmona, Sergio O Angel and Fernán Agüero
    Citation: BMC Genomics 2014 15:21
    Content type: Research article Published on:

  38. Regulatory function of small non-coding RNAs (sRNA) in response to environmental and developmental cues has been established. Additionally, sRNA, also plays an important role in maintaining the heterochromatin...

    Authors: Rishi Aryal, Guru Jagadeeswaran, Yun Zheng, Qingyi Yu, Ramanjulu Sunkar and Ray Ming
    Citation: BMC Genomics 2014 15:20
    Content type: Research article Published on:

  39. Eukaryotic cells express a complex layer of noncoding RNAs. An intriguing family of regulatory RNAs includes transcripts from the opposite strand of protein coding genes, so called natural antisense transcript...

    Authors: Andreas Werner, Simon Cockell, Jane Falconer, Mark Carlile, Sammer Alnumeir and John Robinson
    Citation: BMC Genomics 2014 15:19
    Content type: Research article Published on:

  40. Phytophthora root and stem rot (PRR) of soybean, caused by Phytophthora sojae, is controlled by Rps genes. However, little is known regarding the Rps-induced molecular responses to P. sojae and how they actually ...

    Authors: Feng Lin, Meixia Zhao, Douglas D Baumann, Jieqing Ping, Lianjun Sun, Yunfeng Liu, Biao Zhang, Zongxiang Tang, Elisa Hughes, Rebecca W Doerge, Teresa J Hughes and Jianxin Ma
    Citation: BMC Genomics 2014 15:18
    Content type: Research article Published on:

  41. Although serotype O157:H7 is the predominant enterohemorrhagic Escherichia coli (EHEC), outbreaks of non-O157 EHEC that cause severe foodborne illness, including hemolytic uremic syndrome have increased worldwide...

    Authors: Kerry K Cooper, Robert E Mandrell, Jacqueline W Louie, Jonas Korlach, Tyson A Clark, Craig T Parker, Steven Huynh, Patrick S Chain, Sanaa Ahmed and Michelle Qiu Carter
    Citation: BMC Genomics 2014 15:17
    Content type: Research article Published on:

  42. High-throughput sequencing has opened up exciting possibilities in population and conservation genetics by enabling the assessment of genetic variation at genome-wide scales. One approach to reduce genome comp...

    Authors: Maja P Greminger, Kai N Stölting, Alexander Nater, Benoit Goossens, Natasha Arora, Rémy Bruggmann, Andrea Patrignani, Beatrice Nussberger, Reeta Sharma, Robert H S Kraus, Laurentius N Ambu, Ian Singleton, Lounes Chikhi, Carel P van Schaik and Michael Krützen
    Citation: BMC Genomics 2014 15:16
    Content type: Research article Published on:

  43. Degradation is essential for RNA maturation, turnover, and quality control. RNA degradome sequencing that integrates a modified 5′-rapid amplification of cDNA ends protocol with next-generation sequencing tech...

    Authors: Cheng-Yu Hou, Ming-Tsung Wu, Shin-Hua Lu, Yue-Ie Hsing and Ho-Ming Chen
    Citation: BMC Genomics 2014 15:15
    Content type: Research article Published on:

  44. The completion of whole-genome sequencing for Corynebacterium pseudotuberculosis strain 1002 has contributed to major advances in research aimed at understanding the biology of this microorganism. This bacterium ...

    Authors: Anne Cybelle Pinto, Pablo Henrique Caracciolo Gomes de Sá, Rommel T J Ramos, Silvanira Barbosa, Hivana P Melo Barbosa, Adriana Carneiro Ribeiro, Wanderson Marques Silva, Flávia Souza Rocha, Mariana Passos Santana, Thiago Luiz de Paula Castro, Anderson Miyoshi, Maria P C Schneider, Artur Silva and Vasco Azevedo
    Citation: BMC Genomics 2014 15:14
    Content type: Research article Published on:

  45. While the possible sources underlying the so-called ‘missing heritability’ evident in current genome-wide association studies (GWAS) of complex traits have been actively pursued in recent years, resolving this...

    Authors: Shengjie Yang, Yiyuan Liu, Ning Jiang, Jing Chen, Lindsey Leach, Zewei Luo and Minghui Wang
    Citation: BMC Genomics 2014 15:13
    Content type: Research article Published on:

  46. DNA methylation is an important epigenetic modification that is essential for epigenetic gene regulation in development and disease. To date, the genome-wide DNA methylation maps of many organisms have been re...

    Authors: Jianmin Su, Yongsheng Wang, Xupeng Xing, Jun Liu and Yong Zhang
    Citation: BMC Genomics 2014 15:12
    Content type: Research article Published on:

  47. Polyploid species contribute to Oryza diversity. However, the mechanisms underlying gene and genome evolution in Oryza polyploids remain largely unknown. The allotetraploid Oryza minuta, which is estimated to hav...

    Authors: Yi Sui, Bo Li, Jinfeng Shi and Mingsheng Chen
    Citation: BMC Genomics 2014 15:11
    Content type: Research article Published on:

  49. A major production constraint on the important ornamental species chrysanthemum is black spot which is caused by the necrotrophic fungus Alternaria tenuissima. The molecular basis of host resistance to A. tenuiss...

    Authors: Huiyun Li, Sumei Chen, Aiping Song, Haibin Wang, Weimin Fang, Zhiyong Guan, Jiafu Jiang and Fadi Chen
    Citation: BMC Genomics 2014 15:9
    Content type: Research article Published on:

  50. Plant disease resistance (R) genes with the nucleotide binding site (NBS) play an important role in offering resistance to pathogens. The availability of complete genome sequences of Brassica oleracea and Brassic...

    Authors: Jingyin Yu, Sadia Tehrim, Fengqi Zhang, Chaobo Tong, Junyan Huang, Xiaohui Cheng, Caihua Dong, Yanqiu Zhou, Rui Qin, Wei Hua and Shengyi Liu
    Citation: BMC Genomics 2014 15:3
    Content type: Research article Published on:

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BMC Genomics

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