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  1. Arabidopsis pumila is native to the desert region of northwest China and it is extraordinarily well adapted to the local semi-desert saline soil, thus providing a candidate plant system for environmental adaptati...

    Authors: Lifei Yang, Yuhuan Jin, Wei Huang, Qi Sun, Fang Liu and Xianzhong Huang
    Citation: BMC Genomics 2018 19:717
    Content type: Research article Published on:

  2. Microarray and DNA-sequencing based technologies continue to produce enormous amounts of data on gene expression. This data has great potential to illuminate our understanding of biology and medicine, but the ...

    Authors: Natalia Polouliakh, Paul Horton, Kazuhiro Shibanai, Kodai Takata, Vanessa Ludwig, Samik Ghosh and Hiroaki Kitano
    Citation: BMC Genomics 2018 19:715
    Content type: Software Published on:

  3. Aeromonas hydrophila is a potential zoonotic pathogen and primary fish pathogen. With overlapping characteristics, multiple isolates are often mislabelled and misclassified. Moreover, the potential pathogenic fac...

    Authors: Furqan Awan, Yuhao Dong, Jin Liu, Nannan Wang, Muhammad Hassan Mushtaq, Chengping Lu and Yongjie Liu
    Citation: BMC Genomics 2018 19:712
    Content type: Research article Published on:

  4. Ecdysis is an innate behaviour programme by which all arthropods moult their exoskeletons. The complex suite of interacting neuropeptides that orchestrate ecdysis is well studied in insects, but details of the...

    Authors: Andrew Oliphant, Jodi L. Alexander, Martin T. Swain, Simon G. Webster and David C. Wilcockson
    Citation: BMC Genomics 2018 19:711
    Content type: Research article Published on:

  5. VQ motif-containing (VQ) proteins are plant-specific proteins that interact with WRKY transcription factors and play important roles in plant growth, development and stress response. To date, VQ gene families hav...

    Authors: Junhong Guo, Jiangfei Chen, Jiankun Yang, Youben Yu, Yajun Yang and Weidong Wang
    Citation: BMC Genomics 2018 19:710
    Content type: Research article Published on:

  6. Metal tolerance is often an integrative result of metal uptake and distribution, which are fine-tuned by a network of signaling cascades and metal transporters. Thus, with the goal of advancing the molecular u...

    Authors: Dan Cheng, Mingpu Tan, Haijuan Yu, Liang Li, Dandan Zhu, Yahua Chen and Mingyi Jiang
    Citation: BMC Genomics 2018 19:709
    Content type: Research article Published on:

  7. Listeria monocytogenes is a widespread foodborne pathogen that can cause listeriosis, a potentially fatal infection. L. monocytogenes is subdivided into four phylogenetic lineages, with the highest incidence of l...

    Authors: Cary Pirone-Davies, Yi Chen, Arthur Pightling, Gina Ryan, Yu Wang, Kuan Yao, Maria Hoffmann and Marc W. Allard
    Citation: BMC Genomics 2018 19:708
    Content type: Research article Published on:

  8. The FK506-binding proteins (FKBPs) play diverse roles in numerous critical processes for plant growth, development, and abiotic stress responses. However, the FKBP gene family in the important fruit crop apple (M...

    Authors: Qinglong Dong, Ke Mao, Dingyue Duan, Shuang Zhao, Yanpeng Wang, Qian Wang, Dong Huang, Chao Li, Changhai Liu, Xiaoqing Gong and Fengwang Ma
    Citation: BMC Genomics 2018 19:707
    Content type: Research article Published on:

  9. Rice plants are sensitive to the agro-climate conditions, being photoperiod one of main factor contributing to their adaptation to the region where they are grown. Dissecting the genetic bases underlying diver...

    Authors: Juan L Reig-Valiente, Luis Marqués, Manuel Talón and Concha Domingo
    Citation: BMC Genomics 2018 19:706
    Content type: Research article Published on:

  10. Powdery mildew (PM) is one of the most important and widespread plant diseases caused by biotrophic fungi. Notably, while monocot (grass) PM fungi exhibit high-level of host-specialization, many dicot PM fungi...

    Authors: Ying Wu, Xianfeng Ma, Zhiyong Pan, Shiv D. Kale, Yi Song, Harlan King, Qiong Zhang, Christian Presley, Xiuxin Deng, Cheng-I Wei and Shunyuan Xiao
    Citation: BMC Genomics 2018 19:705
    Content type: Research article Published on:

  11. Tissue regeneration is widely distributed across the tree of life. Among vertebrates, salamanders possess an exceptional ability to regenerate amputated limbs and other complex structures. Thus far, molecular ...

    Authors: Claudia M. Arenas Gómez, Ryan M. Woodcock, Jeramiah J. Smith, Randal S. Voss and Jean Paul Delgado
    Citation: BMC Genomics 2018 19:704
    Content type: Research article Published on:

  12. RNA-seq is a reference technology for determining alternative splicing at genome-wide level. Exon arrays remain widely used for the analysis of gene expression, but show poor validation rate with regard to spl...

    Authors: Juan P. Romero, María Ortiz-Estévez, Ander Muniategui, Soraya Carrancio, Fernando J. de Miguel, Fernando Carazo, Luis M. Montuenga, Remco Loos, Rubén Pío, Matthew W. B. Trotter and Angel Rubio
    Citation: BMC Genomics 2018 19:703
    Content type: Research article Published on:

  13. Maternal nutrition has been highlighted as one of the main factors affecting intra-uterine environment. The increase in nutritional requirements by beef cows during late gestation can cause nutritional deficie...

    Authors: Leticia P Sanglard, Moysés Nascimento, Philipe Moriel, Jeffrey Sommer, Melissa Ashwell, Matthew H Poore, Márcio de S Duarte and Nick V L Serão
    Citation: BMC Genomics 2018 19:702
    Content type: Research article Published on:

  14. Life in the ocean will increasingly have to contend with a complex matrix of concurrent shifts in environmental properties that impact their physiology and control their life histories. Rhodoliths are corallin...

    Authors: Giselle S. Cavalcanti, Priya Shukla, Megan Morris, Bárbara Ribeiro, Mariah Foley, Michael P. Doane, Cristiane C. Thompson, Matthew S. Edwards, Elizabeth A. Dinsdale and Fabiano L. Thompson
    Citation: BMC Genomics 2018 19:701
    Content type: Research article Published on:

  16. Chicken coccidiosis, caused by the infection of Eimeria species, leads to important economic losses to the poultry industry. Vaccination with attenuated live parasites seems to be the best way to control this dis...

    Authors: Dandan Hu, Chaoyue Wang, Si Wang, Xinming Tang, Chunhui Duan, Sixin Zhang, Jinxia Suo, Miner Deng, Yanli Lv, Xun Suo and Xianyong Liu
    Citation: BMC Genomics 2018 19:699
    Content type: Research article Published on:

  17. Erinnyis ello granulovirus (ErelGV) is a betabaculovirus infecting caterpillars of the sphingid moth E. ello ello (cassava hornworm), an important pest of cassava crops (Manihot esculenta). In this study, the gen...

    Authors: A. F. Brito, F. L. Melo, D. M. P. Ardisson-Araújo, W. Sihler, M. L. Souza and B. M. Ribeiro
    Citation: BMC Genomics 2018 19:698
    Content type: Research article Published on:

  18. The formation of matured and individual sperm involves a series of molecular and spectacular morphological changes of the developing cysts in Drosophila melanogaster testis. Recent advances in RNA Sequencing (RNA...

    Authors: Viktor Vedelek, László Bodai, Gábor Grézal, Bence Kovács, Imre M. Boros, Barbara Laurinyecz and Rita Sinka
    Citation: BMC Genomics 2018 19:697
    Content type: Research article Published on:

  19. Antimicrobial peptides are a promising alternative for combating pathogens resistant to conventional antibiotics. Computer-assisted peptide discovery strategies are necessary to automatically assess a signific...

    Authors: Jesus A. Beltran, Longendri Aguilera-Mendoza and Carlos A. Brizuela
    Citation: BMC Genomics 2018 19(Suppl 7):672
    Content type: Research Published on:

    This article is part of a Supplement: Volume 19 Supplement 7

  20. The protein energy landscape underscores the inherent nature of proteins as dynamic molecules interconverting between structures with varying energies. Reconstructing a protein’s energy landscape holds the key...

    Authors: Wanli Qiao, Nasrin Akhter, Xiaowen Fang, Tatiana Maximova, Erion Plaku and Amarda Shehu
    Citation: BMC Genomics 2018 19(Suppl 7):671
    Content type: Research Published on:

    This article is part of a Supplement: Volume 19 Supplement 7

  21. Aligning protein-protein interaction (PPI) networks is very important to discover the functionally conserved sub-structures between different species. In recent years, the global PPI network alignment problem ...

    Authors: Yuanyuan Zhu, Yuezhi Li, Juan Liu, Lu Qin and Jeffrey Xu Yu
    Citation: BMC Genomics 2018 19(Suppl 7):670
    Content type: Research Published on:

    This article is part of a Supplement: Volume 19 Supplement 7

  22. Small interfering RNA (siRNA) can be used to post-transcriptional gene regulation by knocking down targeted genes. In functional genomics, biomedical research and cancer therapeutics, siRNA design is a critica...

    Authors: Ye Han, Fei He, Yongbing Chen, Yuanning Liu and Helong Yu
    Citation: BMC Genomics 2018 19(Suppl 7):669
    Content type: Research Published on:

    This article is part of a Supplement: Volume 19 Supplement 7

  23. In silico investigations on the integration of multiple datasets are in need of higher statistical power methods to unveil secondary findings that were hidden from the initial analyses. We present here a novel me...

    Authors: Rubén Armañanzas
    Citation: BMC Genomics 2018 19(Suppl 7):668
    Content type: Methodology Published on:

    This article is part of a Supplement: Volume 19 Supplement 7

  24. The ability to predict the interaction of drugs with target proteins is essential to research and development of drug. However, the traditional experimental paradigm is costly, and previous in silico prediction p...

    Authors: Lingwei Xie, Song He, Xinyu Song, Xiaochen Bo and Zhongnan Zhang
    Citation: BMC Genomics 2018 19(Suppl 7):667
    Content type: Research Published on:

    This article is part of a Supplement: Volume 19 Supplement 7

  25. Database search has been the main approach for proteoform identification by top-down tandem mass spectrometry. However, when the target proteoform that produced the spectrum contains post-translational modific...

    Authors: Runmin Yang and Daming Zhu
    Citation: BMC Genomics 2018 19(Suppl 7):666
    Content type: Methodology Published on:

    This article is part of a Supplement: Volume 19 Supplement 7

  26. MicroRNA regulation is fundamentally responsible for fine-tuning the whole gene network in human and has been implicated in most physiological and pathological conditions. Studying regulatory impact of microRN...

    Authors: Zeynep Hakguder, Jiang Shu, Chunxiao Liao, Kaiyue Pan and Juan Cui
    Citation: BMC Genomics 2018 19(Suppl 7):658
    Content type: Research Published on:

    This article is part of a Supplement: Volume 19 Supplement 7

  27. Cell type-specific ribosome-pulldown has become an increasingly popular method for analysis of gene expression. It allows for expression analysis from intact tissues and monitoring of protein synthesis in vivo...

    Authors: Yang Song, Beatrice Milon, Sandra Ott, Xuechu Zhao, Lisa Sadzewicz, Amol Shetty, Erich T. Boger, Luke J. Tallon, Robert J. Morell, Anup Mahurkar and Ronna Hertzano
    Citation: BMC Genomics 2018 19:696
    Content type: Research article Published on:

  28. Although hatching is perhaps the most abrupt and profound metabolic challenge that a chicken must undergo; there have been no attempts to functionally map the metabolic pathways induced in liver during the emb...

    Authors: Larry A. Cogburn, Nares Trakooljul, Chuming Chen, Hongzhan Huang, Cathy H. Wu, Wilfrid Carré, Xiaofei Wang and Harold B. White III
    Citation: BMC Genomics 2018 19:695
    Content type: Research article Published on:

  29. Natural antibodies (NAb) are an important component of the innate immune system, and fight infections as a part of the first line defence. NAb are poly-reactive and can respond non-specifically to antigens. Th...

    Authors: Britt de Klerk, Mehdi Emam, Kathleen A. Thompson-Crispi, Mehdi Sargolzaei, Johan J. van der Poel and Bonnie A. Mallard
    Citation: BMC Genomics 2018 19:694
    Content type: Research article Published on:

  30. The oriental fruit fly, Bactrocera dorsalis (Hendel) has been considered to be one of the most important agricultural pest around the world. As a holometabolous insect, larvae must go through a metamorphosis proc...

    Authors: Er-Hu Chen, Qiu-Li Hou, Wei Dou, Dan-Dan Wei, Yong Yue, Rui-Lin Yang, Shuai-Feng Yu, Kristof De Schutter, Guy Smagghe and Jin-Jun Wang
    Citation: BMC Genomics 2018 19:693
    Content type: Research article Published on:

  31. Divergent genetic responses to the same environmental pressures may lead sympatric ecological speciation possible. Such speciation process possibly explains rapid sympatric speciation of island species. Two is...

    Authors: Bing-Hong Huang, Yuan-Chien Lin, Chih-Wei Huang, Hsin-Pei Lu, Min-Xin Luo and Pei-Chun Liao
    Citation: BMC Genomics 2018 19:692
    Content type: Research article Published on:

  33. The scalloped spiny lobster (Panulirus homarus) is a popular seafood commodity worldwide and an important export item from Oman. Annual catches in commercial fisheries are in serious decline, which has resulted i...

    Authors: Rufaida Dhuhai Al-Breiki, Shannon R. Kjeldsen, Hasifa Afzal, Manal Saif Al Hinai, Kyall R. Zenger, Dean R. Jerry, Mohammed Ali Al-Abri and Madjid Delghandi
    Citation: BMC Genomics 2018 19:690
    Content type: Research article Published on:

  34. JWB phytoplasma is a kind of insect-transmitted and uncultivable bacterial plant pathogen causeing a destructive Jujube disease. To date, no genome information about JWB phytoplasma has been published, which h...

    Authors: Jie Wang, Laiqing Song, Qiqing Jiao, Shuke Yang, Rui Gao, Xingbo Lu and Guangfang Zhou
    Citation: BMC Genomics 2018 19:689
    Content type: Research article Published on:

  35. Sogatella furcifera is a migratory pest that damages rice plants and causes severe economic losses. Due to its ability to annually migrate long distances, S. furcifera has emerged as a major pest of rice in sever...

    Authors: Zhen Zeng, Yating Fu, Dongyang Guo, Yuxuan Wu, Olugbenga Emmanuel Ajayi and Qingfa Wu
    Citation: BMC Genomics 2018 19:688
    Content type: Research article Published on:

  36. Domestication has led to substantial phenotypic and genetic variation in domestic animals. In pigs, the size of so called minipigs differs by one order of magnitude compared to breeds of large body size. We us...

    Authors: C. Reimer, C.-J. Rubin, A. R. Sharifi, N.-T. Ha, S. Weigend, K.-H. Waldmann, O. Distl, S. D. Pant, M. Fredholm, M. Schlather and H. Simianer
    Citation: BMC Genomics 2018 19:687
    Content type: Research article Published on:

  37. Following the publication of this article [1], the authors informed us of the following error.

    Authors: E. A. S. Buiate, K. V. Xavier, N. Moore, M. F. Torres, M. L. Farman, C. L. Schardl and L. J. Vaillancourt
    Citation: BMC Genomics 2018 19:686
    Content type: Correction Published on:

    The original article was published in BMC Genomics 2017 18:67

  38. In the present study, we sequenced the complete genomes of three novel bacteriophages v_B-Bak1, v_B-Bak6, v_B-Bak10 previously isolated from historical anthrax burial sites in the South Caucasus country of Geo...

    Authors: J. Farlow, D. Bolkvadze, L. Leshkasheli, I. Kusradze, A. Kotorashvili, N. Kotaria, N. Balarjishvili, L. Kvachadze, M. Nikolich and M. Kutateladze
    Citation: BMC Genomics 2018 19:685
    Content type: Research article Published on:

    The Correction to this article has been published in BMC Genomics 2018 19:713

  39. Numerous long non-coding RNAs (lncRNAs) have been identified and their roles in gene regulation in humans, mice, and other model organisms studied; however, far less research has been focused on lncRNAs in far...

    Authors: Colin Kern, Ying Wang, James Chitwood, Ian Korf, Mary Delany, Hans Cheng, Juan F. Medrano, Alison L. Van Eenennaam, Catherine Ernst, Pablo Ross and Huaijun Zhou
    Citation: BMC Genomics 2018 19:684
    Content type: Research article Published on:

  40. Genetically selected modern broiler chickens have acquired outstanding production efficiency through rapid growth and improved feed efficiency compared to unselected chicken breeds. Recently, we analyzed the t...

    Authors: Bhuwan Khatri, Dongwon Seo, Stephanie Shouse, Jeong Hoon Pan, Nicholas J. Hudson, Jae Kyeom Kim, Walter Bottje and Byungwhi C. Kong
    Citation: BMC Genomics 2018 19:683
    Content type: Research article Published on:

  41. The molecular basis of compensatory growth in monogastric animals has not yet been fully explored. Herewith, in this study we aim to determine changes in the pig skeletal muscle transcriptome profile during co...

    Authors: Maria Ballester, Marcel Amills, Olga González-Rodríguez, Tainã F. Cardoso, Mariam Pascual, Rayner González-Prendes, Núria Panella-Riera, Isabel Díaz, Joan Tibau and Raquel Quintanilla
    Citation: BMC Genomics 2018 19:682
    Content type: Research article Published on:

  42. The current literature on single cell genomic analyses on the DNA level is conflicting regarding requirements for cell quality, amplification success rates, allelic dropouts and resolution, lacking a systemati...

    Authors: Anita T. Simonsen, Marcus C. Hansen, Eigil Kjeldsen, Peter L. Møller, Johnny J. Hindkjær, Peter Hokland and Anni Aggerholm
    Citation: BMC Genomics 2018 19:681
    Content type: Research article Published on:

  43. The aim of this study was to assess genome-wide autozygosity in a Nellore cattle population and to characterize ROH patterns and autozygosity islands that may have occurred due to selection within its lineages...

    Authors: Elisa Peripolli, Julia Metzger, Marcos Vinícius Antunes de Lemos, Nedenia Bonvino Stafuzza, Sabrina Kluska, Bianca Ferreira Olivieri, Fabieli Louise Braga Feitosa, Mariana Piatto Berton, Fernando Brito Lopes, Danísio Prado Munari, Raysildo Barbosa Lôbo, Cláudio de Ulhoa Magnabosco, Fernando Di Croce, Jason Osterstock, Sue Denise, Angélica Simone Cravo Pereira…
    Citation: BMC Genomics 2018 19:680
    Content type: Research article Published on:

  44. Sorghum bicolor is the fifth most commonly grown cereal worldwide and is remarkable for its drought and abiotic stress tolerance. For these reasons and the large size of biomass varieties, it has been proposed as...

    Authors: Jennifer E. Spindel, Jeffery Dahlberg, Matthew Colgan, Joy Hollingsworth, Julie Sievert, Scott H. Staggenborg, Robert Hutmacher, Christer Jansson and John P. Vogel
    Citation: BMC Genomics 2018 19:679
    Content type: Research article Published on:

  45. Human perception of bitter substances is partially genetically determined. Previously we discovered a single nucleotide polymorphism (SNP) within the cluster of bitter taste receptor genes on chromosome 12 tha...

    Authors: Liang-Dar Hwang, Puya Gharahkhani, Paul A. S. Breslin, Scott D. Gordon, Gu Zhu, Nicholas G. Martin, Danielle R. Reed and Margaret J. Wright
    Citation: BMC Genomics 2018 19:678
    Content type: Research article Published on:

  46. Environmental changes of biotic or abiotic nature during critical periods of early development may exert a profound influence on physiological functions later in life. This process, named developmental program...

    Authors: Vincent Veron, Lucie Marandel, Jingwei Liu, Emilio J. Vélez, Olivier Lepais, Stéphane Panserat, Sandrine Skiba and Iban Seiliez
    Citation: BMC Genomics 2018 19:677
    Content type: Research article Published on:

  47. Pseudocohnilembus persalinus, a unicellular ciliated protozoan, is one of commonest facultative pathogens. We sequenced the macronuclear genome of P. persalinus in 2015, which provided new insights into its patho...

    Authors: Wei Wei, Kai Chen, Wei Miao, Wentao Yang and Jie Xiong
    Citation: BMC Genomics 2018 19:676
    Content type: Database Published on:

  48. Our previous study found that more than 500 transcripts significantly increased in abundance in the zebrafish and mouse several hours to days postmortem relative to live controls. The current literature sugges...

    Authors: Peter A. Noble and Alexander E. Pozhitkov
    Citation: BMC Genomics 2018 19:675
    Content type: Research article Published on:

  49. Members of the transient receptor potential (TRP) superfamily are proteins that are critical for insects to detect changes in environmental stimuli and also play key roles in their sensory physiology. Moreover...

    Authors: Hong-ai Su, Xue Bai, Tian Zeng, Yong-yue Lu and Yi-xiang Qi
    Citation: BMC Genomics 2018 19:674
    Content type: Research article Published on:

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BMC Genomics

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