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  1. The Ts1Cje mouse model of Down syndrome (DS) has partial triplication of mouse chromosome 16 (MMU16), which is partially homologous to human chromosome 21. These mice develop various neuropathological features...

    Authors: King-Hwa Ling, Chelsee A Hewitt, Kai-Leng Tan, Pike-See Cheah, Sharmili Vidyadaran, Mei-I Lai, Han-Chung Lee, Ken Simpson, Lavinia Hyde, Melanie A Pritchard, Gordon K Smyth, Tim Thomas and Hamish S Scott
    Citation: BMC Genomics 2014 15:624
    Content type: Research article Published on:

  2. Bovine hereditary zinc deficiency (BHZD) is an autosomal recessive disorder of cattle, first described in Holstein-Friesian animals. Affected calves suffer from severe skin lesions and show a poor general heal...

    Authors: Simone Jung, Hubert Pausch, Martin C Langenmayer, Hermann Schwarzenbacher, Monir Majzoub-Altweck, Nicole S Gollnick and Ruedi Fries
    Citation: BMC Genomics 2014 15:623
    Content type: Research article Published on:

  3. Genome wide association studies (GWAS) are applied to identify genetic loci, which are associated with complex traits and human diseases. Analogous to the evolution of gene expression analyses, pathway analyse...

    Authors: Christina Backes, Frank Rühle, Monika Stoll, Jan Haas, Karen Frese, Andre Franke, Wolfgang Lieb, H-Erich Wichmann, Tanja Weis, Wanda Kloos, Hans-Peter Lenhof, Eckart Meese, Hugo Katus, Benjamin Meder and Andreas Keller
    Citation: BMC Genomics 2014 15:622
    Content type: Research article Published on:

  4. Insulin producing beta cell and glucagon producing alpha cells are colocalized in pancreatic islets in an arrangement that facilitates the coordinated release of the two principal hormones that regulate glucos...

    Authors: Christopher Benner, Talitha van der Meulen, Elena Cacéres, Kristof Tigyi, Cynthia J Donaldson and Mark O Huising
    Citation: BMC Genomics 2014 15:620
    Content type: Research article Published on:

  5. A convergence of high-throughput sequencing and computational power is transforming biology into information science. Despite these technological advances, converting bits and bytes of sequence information int...

    Authors: Niels W Hanson, Kishori M Konwar, Alyse K Hawley, Tomer Altman, Peter D Karp and Steven J Hallam
    Citation: BMC Genomics 2014 15:619
    Content type: Methodology article Published on:

  6. Powdery mildew (PM) is a major fungal disease of thousands of plant species, including many cultivated Rosaceae. PM pathogenesis is associated with up-regulation of MLO genes during early stages of infection, cau...

    Authors: Stefano Pessina, Stefano Pavan, Domenico Catalano, Alessandra Gallotta, Richard GF Visser, Yuling Bai, Mickael Malnoy and Henk J Schouten
    Citation: BMC Genomics 2014 15:618
    Content type: Research article Published on:

  7. Identification of parasite genes that underlie traits such as drug resistance and host specificity is challenging using classical linkage mapping approaches. Extreme QTL (X-QTL) methods, originally developed b...

    Authors: Frédéric D Chevalier, Claudia LL Valentim, Philip T LoVerde and Timothy JC Anderson
    Citation: BMC Genomics 2014 15:617
    Content type: Research article Published on:

  8. Dictyostelium discoideum, a microbial model for social evolution, is known to distinguish self from non-self and show genotype-dependent behavior during chimeric development. Aside from a small number of cell-cel...

    Authors: Si I Li, Neil J Buttery, Christopher RL Thompson and Michael D Purugganan
    Citation: BMC Genomics 2014 15:616
    Content type: Research article Published on:

  9. Alternative polyadenylation (APA) plays an important role in the post-transcriptional regulation of gene expression. Little is known about how APA sites may evolve in homologous genes in different plant specie...

    Authors: Xiaohui Wu, Bobby Gaffney, Arthur G Hunt and Qingshun Q Li
    Citation: BMC Genomics 2014 15:615
    Content type: Research article Published on:

  11. Lipid polymers in plant cell walls, such as cutin and suberin, build recalcitrant hydrophobic protective barriers. Their degradation is of foremost importance for both plant pathogenic and saprophytic fungi. R...

    Authors: Isabel Martins, Diego O Hartmann, Paula C Alves, Celso Martins, Helga Garcia, Céline C Leclercq, Rui Ferreira, Ji He, Jenny Renaut, Jörg D Becker and Cristina Silva Pereira
    Citation: BMC Genomics 2014 15:613
    Content type: Research article Published on:

  12. All modern rosids originated from a common hexapolyploid ancestor, and the genomes of some rosids have undergone one or more cycles of paleopolyploidy. After the duplication of the ancient genome, wholesale ge...

    Authors: Lianhua Guo, Yingnan Chen, Ning Ye, Xiaogang Dai, Wanxu Yang and Tongming Yin
    Citation: BMC Genomics 2014 15:612
    Content type: Research article Published on:

  13. Cadmium (Cd) is a severe detrimental environmental pollutant. To adapt to Cd-induced deleterious effects, plants have evolved sophisticated defence mechanisms. In this study, a genome-wide transcriptome analys...

    Authors: Fangbin Cao, Fei Chen, Hongyan Sun, Guoping Zhang, Zhong-Hua Chen and Feibo Wu
    Citation: BMC Genomics 2014 15:611
    Content type: Research article Published on:

  15. Frankia is a genus of soil actinobacteria forming nitrogen-fixing root-nodule symbiotic relationships with non-leguminous woody plant species, collectively called actinorhizals, from eight dicotyledonous families...

    Authors: Ken-ichi Kucho, Takashi Yamanaka, Hideo Sasakawa, Samira R Mansour and Toshiki Uchiumi
    Citation: BMC Genomics 2014 15:609
    Content type: Research article Published on:

  16. Whole genome sequencing of bisulfite converted DNA (‘methylC-seq’) method provides comprehensive information of DNA methylation. An important application of these whole genome methylation maps is classifying e...

    Authors: Iksoo Huh, Xingyu Yang, Taesung Park and Soojin V Yi
    Citation: BMC Genomics 2014 15:608
    Content type: Methodology article Published on:

  17. Coral reefs worldwide are being harmed through anthropogenic activities. Some coral reefs in Thailand remain well-preserved, including the shallow coral reefs along Kra island, Nakhon Si Thammarat province. In...

    Authors: Naraporn Somboonna, Alisa Wilantho, Anunchai Assawamakin, Somchai Monanunsap, Duangjai Sangsrakru, Sithichoke Tangphatsornruang and Sissades Tongsima
    Citation: BMC Genomics 2014 15:607
    Content type: Research article Published on:

  18. The Brassicaceae family is an exemplary model for studying plant polyploidy. The Brassicaceae knowledge-base includes the well-annotated Arabidopsis thaliana reference sequence; well-established evidence for thre...

    Authors: Jungeun Kim, Jeongyeo Lee, Jae-Pil Choi, Inkyu Park, Kyungbong Yang, Min Keun Kim, Young Han Lee, Ill-Sup Nou, Dae-Soo Kim, Sung Ran Min, Sang Un Park and HyeRan Kim
    Citation: BMC Genomics 2014 15:606
    Content type: Research article Published on:

  20. Haptophytes are widely and abundantly distributed in both marine and freshwater ecosystems. Few genomic analyses of representatives within this taxon have been reported, despite their early evolutionary origin...

    Authors: Blake T Hovde, Shawn R Starkenburg, Heather M Hunsperger, Laina D Mercer, Chloe R Deodato, Ramesh K Jha, Olga Chertkov, Raymond J Monnat Jr and Rose Ann Cattolico
    Citation: BMC Genomics 2014 15:604
    Content type: Research article Published on:

  21. Phellinus sulphurascens is a fungal pathogen that causes laminar root rot in conifers, one of the most damaging root diseases in western North America. Despite its importance as a forest pathogen, this fungus is ...

    Authors: Holly L Williams, Rona N Sturrock, Muhammad A Islam, Craig Hammett, Abul K M Ekramoddoullah and Isabel Leal
    Citation: BMC Genomics 2014 15:603
    Content type: Research article Published on:

  23. Despite having predominately deleterious fitness effects, transposable elements (TEs) are major constituents of eukaryote genomes in general and of plant genomes in particular. Although the proportion of the g...

    Authors: J Arvid Ã…gren, Wei Wang, Daniel Koenig, Barbara Neuffer, Detlef Weigel and Stephen I Wright
    Citation: BMC Genomics 2014 15:602
    Content type: Research article Published on:

  24. A major concern in conservation genetics is to maintain the genetic diversity of populations. Genetic variation in livestock species is threatened by the progressive marginalisation of local breeds in benefit ...

    Authors: Juan Manuel Herrero-Medrano, Hendrik-Jan Megens, Martien AM Groenen, Mirte Bosse, Miguel Pérez-Enciso and Richard PMA Crooijmans
    Citation: BMC Genomics 2014 15:601
    Content type: Research article Published on:

  25. Helicobacter is a genus of Gram-negative bacteria, possessing a characteristic helical shape that has been associated with a wide spectrum of human diseases. Although much research has been done on Helicobacter a...

    Authors: Siew Woh Choo, Mia Yang Ang, Hanieh Fouladi, Shi Yang Tan, Cheuk Chuen Siow, Naresh VR Mutha, Hamed Heydari, Wei Yee Wee, Jamuna Vadivelu, Mun Fai Loke, Vellaya Rehvathy and Guat Jah Wong
    Citation: BMC Genomics 2014 15:600
    Content type: Database Published on:

  26. The recent increase in human polymorphism data, together with the availability of genome sequences from several primate species, provides an unprecedented opportunity to investigate how natural selection has s...

    Authors: Magdalena Gayà-Vidal and M Mar Albà
    Citation: BMC Genomics 2014 15:599
    Content type: Research article Published on:

  27. DNA methylation is an epigenetic regulatory mechanism that plays an essential role in mediating biological processes and determining phenotypic plasticity in organisms. Although the horse reference genome and ...

    Authors: Ja-Rang Lee, Chang Pyo Hong, Jae-Woo Moon, Yi-Deun Jung, Dae-Soo Kim, Tae-Hyung Kim, Jeong-An Gim, Jin-Han Bae, Yuri Choi, Jungwoo Eo, Yun-Jeong Kwon, Sanghoon Song, Junsu Ko, Young Mok Yang, Hak-Kyo Lee, Kyung-Do Park…
    Citation: BMC Genomics 2014 15:598
    Content type: Research article Published on:

  28. Chemosensory receptors including olfactory receptors (ORs), gustatory receptors (GRs) and ionotropic receptors (IRs) play a central role in sensing chemical signals and guiding insect behaviours, and are poten...

    Authors: Nai-Yong Liu, Wei Xu, Alexie Papanicolaou, Shuang-Lin Dong and Alisha Anderson
    Citation: BMC Genomics 2014 15:597
    Content type: Research article Published on:

  29. Plant cell walls are complex structures that full-fill many diverse functions during plant growth and development. It is therefore not surprising that thousands of gene products are involved in cell wall synth...

    Authors: Kai Guo, Weihua Zou, Yongqing Feng, Mingliang Zhang, Jing Zhang, Fen Tu, Guosheng Xie, Lingqiang Wang, Yangting Wang, Sebastian Klie, Staffan Persson and Liangcai Peng
    Citation: BMC Genomics 2014 15:596
    Content type: Research article Published on:

  32. Copy number variations (CNVs) confer significant effects on genetic innovation and phenotypic variation. Previous CNV studies in swine seldom focused on in-depth characterization of global CNVs.

    Authors: Jicai Jiang, Jiying Wang, Haifei Wang, Yan Zhang, Huimin Kang, Xiaotian Feng, Jiafu Wang, Zongjun Yin, Wenbin Bao, Qin Zhang and Jian-Feng Liu
    Citation: BMC Genomics 2014 15:593
    Content type: Research article Published on:

  33. High throughput RNA sequencing (RNA-Seq) can generate whole transcriptome information at the single transcript level providing a powerful tool with multiple interrelated applications including transcriptome re...

    Authors: Serghei Mangul, Adrian Caciula, Sahar Al Seesi, Dumitru Brinza, Ion MÓ‘ndoiu and Alex Zelikovsky
    Citation: BMC Genomics 2014 15(Suppl 5):S7
    Content type: Research Published on:

    This article is part of a Supplement: Volume 15 Supplement 5

  34. The recent advance of high-throughput sequencing makes it feasible to study entire transcriptomes through the application of de novo sequence assembly algorithms. While a popular strategy is to first construct an...

    Authors: Sing-Hoi Sze and Aaron M Tarone
    Citation: BMC Genomics 2014 15(Suppl 5):S6
    Content type: Research Published on:

    This article is part of a Supplement: Volume 15 Supplement 5

  35. In the next generation sequencing techniques millions of short reads are produced from a genomic sequence at a single run. The chances of low read coverage to some regions of the sequence are very high. The re...

    Authors: Subrata Saha and Sanguthevar Rajasekaran
    Citation: BMC Genomics 2014 15(Suppl 5):S5
    Content type: Research Published on:

    This article is part of a Supplement: Volume 15 Supplement 5

  36. Next-generation sequencing (NGS) allows for sampling numerous viral variants from infected patients. This provides a novel opportunity to represent and study the mutational landscape of Hepatitis C Virus (HCV)...

    Authors: David S Campo, Zoya Dimitrova, Lilian Yamasaki, Pavel Skums, Daryl TY Lau, Gilberto Vaughan, Joseph C Forbi, Chong-Gee Teo and Yury Khudyakov
    Citation: BMC Genomics 2014 15(Suppl 5):S4
    Content type: Research Published on:

    This article is part of a Supplement: Volume 15 Supplement 5

  37. One of the great advantages of next generation sequencing is the ability to generate large genomic datasets for virtually all species, including non-model organisms. It should be possible, in turn, to apply ad...

    Authors: Lijun Liu, Victor Missirian, Matthew Zinkgraf, Andrew Groover and Vladimir Filkov
    Citation: BMC Genomics 2014 15(Suppl 5):S3
    Content type: Research Published on:

    This article is part of a Supplement: Volume 15 Supplement 5

  38. The alignment of short reads generated by next-generation sequencers to genomes is an important problem in many biomedical and bioinformatics applications. Although many proposed methods work very well on narr...

    Authors: Nam S Vo, Quang Tran, Nobal Niraula and Vinhthuy Phan
    Citation: BMC Genomics 2014 15(Suppl 5):S2
    Content type: Research Published on:

    This article is part of a Supplement: Volume 15 Supplement 5

  39. Drug resistance has become a severe challenge for treatment of HIV infections. Mutations accumulate in the HIV genome and make certain drugs ineffective. Prediction of resistance from genotype data is a valuab...

    Authors: Xiaxia Yu, Irene T Weber and Robert W Harrison
    Citation: BMC Genomics 2014 15(Suppl 5):S1
    Content type: Research Published on:

    This article is part of a Supplement: Volume 15 Supplement 5

  41. Corals represent symbiotic meta-organisms that require harmonization among the coral animal, photosynthetic zooxanthellae and associated microbes to survive environmental stresses. We investigated integrated-r...

    Authors: Kurt A Gust, Fares Z Najar, Tanwir Habib, Guilherme R Lotufo, Alan M Piggot, Bruce W Fouke, Jennifer G Laird, Mitchell S Wilbanks, Arun Rawat, Karl J Indest, Bruce A Roe and Edward J Perkins
    Citation: BMC Genomics 2014 15:591
    Content type: Research article Published on:

  42. The fungal genus Stachybotrys produces several diverse toxins that affect human health. Its strains comprise two mutually-exclusive toxin chemotypes, one producing satratoxins, which are a subclass of trichothece...

    Authors: Jeremy Semeiks, Dominika Borek, Zbyszek Otwinowski and Nick V Grishin
    Citation: BMC Genomics 2014 15:590
    Content type: Research article Published on:

  43. With the development of space science, it is important to analyze the relationship between the space environment and genome variations that might cause phenotypic changes in microbes. Klebsiella pneumoniae is com...

    Authors: Yinghua Guo, Yinhu Li, Longxiang Su, De Chang, Wenbin Liu, Tong Wang, Yanting Yuan, Xiangqun Fang, Junfeng Wang, Tianzhi Li, Chengxiang Fang, Wenkui Dai and Changting Liu
    Citation: BMC Genomics 2014 15:589
    Content type: Research article Published on:

  44. Ocimum L. of family Lamiaceae is a well known genus for its ethnobotanical, medicinal and aromatic properties, which are attributed to innumerable phenylpropanoid and terpenoid compounds produced by the plant. To...

    Authors: Shubhra Rastogi, Seema Meena, Ankita Bhattacharya, Sumit Ghosh, Rakesh Kumar Shukla, Neelam Singh Sangwan, Raj Kishori Lal, Madan Mohan Gupta, Umesh Chandra Lavania, Vikrant Gupta, Dinesh A Nagegowda and Ajit Kumar Shasany
    Citation: BMC Genomics 2014 15:588
    Content type: Research article Published on:

  45. Tissue regeneration in the lungs is gaining increasing interest as a potential influenza management strategy. In this study, we explored the role of microRNAs, short non-coding RNAs involved in post-transcript...

    Authors: Kai Sen Tan, Hyungwon Choi, Xiaoou Jiang, Lu Yin, Ju Ee Seet, Volker Patzel, Bevin P Engelward and Vincent T Chow
    Citation: BMC Genomics 2014 15:587
    Content type: Research article Published on:

  46. To help understand the molecular mechanisms underlying the remarkable phenotypic diversity displayed by cichlids, the genome sequences of O. niloticus, P. nyererei, H. burtoni, N. brichardi and M. zebra were rece...

    Authors: Naoual Azzouzi, Frederique Barloy-Hubler and Francis Galibert
    Citation: BMC Genomics 2014 15:586
    Content type: Research article Published on:

  47. The green mud crab (Scylla paramamosain) is the most prevalent crustacean on the southeast coast of China. The molecular regulatory mechanism of sex determination and gonadal differentiation in this species has r...

    Authors: Jie Gao, Xiaowei Wang, Zhihua Zou, Xiwei Jia, Yilei Wang and Ziping Zhang
    Citation: BMC Genomics 2014 15:585
    Content type: Research article Published on:

  48. The sulfate-reducing bacterium Desulfococcus biacutus is able to utilize acetone for growth by an inducible degradation pathway that involves a novel activation reaction for acetone with CO as a co-substrate. The...

    Authors: Olga B Gutiérrez Acosta, David Schleheck and Bernhard Schink
    Citation: BMC Genomics 2014 15:584
    Content type: Research article Published on:

  49. Repetitive elements comprise at least 55% of the human genome with more recent estimates as high as two-thirds. Most of these elements are retrotransposons, DNA sequences that can insert copies of themselves i...

    Authors: Steven W Criscione, Yue Zhang, William Thompson, John M Sedivy and Nicola Neretti
    Citation: BMC Genomics 2014 15:583
    Content type: Research article Published on:

  50. Microalgae-derived biodiesel is a promising substitute for conventional fossil fuels. In particular, the green alga Chlorella protothecoides sp. 0710 is regarded as one of the best candidates for commercial manuf...

    Authors: Chunfang Gao, Yun Wang, Yue Shen, Dong Yan, Xi He, Junbiao Dai and Qingyu Wu
    Citation: BMC Genomics 2014 15:582
    Content type: Research article Published on:

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BMC Genomics

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