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  1. Diatoms play a great role in carbon fixation with about 20% of the whole fixation in the world. However, harmful algal bloom as known as red tide is a major problem in environment and fishery industry. Even th...

    Authors: Atsushi Ogura, Yuki Akizuki, Hiroaki Imoda, Katsuhiko Mineta, Takashi Gojobori and Satoshi Nagai
    Citation: BMC Genomics 2018 19:765
    Content type: Research article Published on:

  2. Cold temperatures and their alleviation affect many plant traits including the abundance of protein coding gene transcripts. Transcript level changes that occur in response to cold temperatures and their allev...

    Authors: Luis M Avila, Wisam Obeidat, Hugh Earl, Xiaomu Niu, William Hargreaves and Lewis Lukens
    Citation: BMC Genomics 2018 19:761
    Content type: Research article Published on:

  3. In the past years, our laboratory successfully generated transgenic rainbow trout bearing cecropin P1 transgene. These fish exhibited resistant characteristic to infection by Aeromonas salmonicida, Infectious Hem...

    Authors: Yueh-Chiang Han, Chun-Mean Lin and Thomas T. Chen
    Citation: BMC Genomics 2018 19:760
    Content type: Research article Published on:

  5. Databases of literature-curated protein-protein interactions (PPIs) are often used to interpret high-throughput interactome mapping studies and estimate error rates. These databases combine interactions across...

    Authors: R. Greg Stacey, Michael A. Skinnider, Jenny H. L. Chik and Leonard J. Foster
    Citation: BMC Genomics 2018 19:758
    Content type: Research article Published on:

  6. An efficient signal transduction system allows a bacterium to sense environmental cues and then to respond positively or negatively to those signals; this process is referred to as taxis. In addition to extern...

    Authors: Gaurav Sharma, Rebecca Parales and Mitchell Singer
    Citation: BMC Genomics 2018 19:757
    Content type: Research article Published on:

  7. In diverse plant taxa, whole-genome duplication (WGD) events are major sources of phenotypic novelty. Studies of gene expression in synthetic polyploids have shown immediate expression and functional partition...

    Authors: Long Zhao, Lei Han, Chaoxia Xiao, Xiuyun Lin, Chunming Xu and Chunwu Yang
    Citation: BMC Genomics 2018 19:756
    Content type: Research article Published on:

  8. Previous studies demonstrate the usefulness of using multiple tools and methods for improving the accuracy of motif detection. Over the past years, numerous motif discovery pipelines have been developed. Howev...

    Authors: Ngoc Tam L. Tran and Chun-Hsi Huang
    Citation: BMC Genomics 2018 19:755
    Content type: Software Published on:

  9. COI (CORONATINE INSENSITIVE), an F-box component of the Skp1-Cullin-F-box protein (SCFCOI1) ubiquitin E3 ligase, plays important roles in the regulation of plant growth and development. Recent studies have shown ...

    Authors: Jian-fang Bai, Yu-kun Wang, Peng Wang, Shao-hua Yuan, Jian-gang Gao, Wen-jing Duan, Na Wang, Feng-ting Zhang, Wen-jie Zhang, Meng-ying Qin, Chang-ping Zhao and Li-ping Zhang
    Citation: BMC Genomics 2018 19:754
    Content type: Research article Published on:

  10. Gluconobacter oxydans is a strictly aerobic Gram-negative acetic acid bacterium used industrially for oxidative biotransformations due to its exceptional type of catabolism. It incompletely oxidizes a wide variet...

    Authors: Angela Kranz, Andrea Steinmann, Ursula Degner, Aliye Mengus-Kaya, Susana Matamouros, Michael Bott and Tino Polen
    Citation: BMC Genomics 2018 19:753
    Content type: Research article Published on:

  11. Mitochondrial DNA (mtDNA) copy number has been found associated with multiple diseases, including cancers, diabetes and so on. Both environmental and genetic factors could affect the copy number of mtDNA. Howe...

    Authors: Zhihua Li, Meng Zhu, Jiangbo Du, Hongxia Ma, Guangfu Jin and Juncheng Dai
    Citation: BMC Genomics 2018 19:752
    Content type: Research article Published on:

  12. Pectobacterium parmentieri is a newly established species within the plant pathogenic family Pectobacteriaceae. Bacteria belonging to this species are causative agents of diseases in economically important crops ...

    Authors: S. Zoledowska, A. Motyka-Pomagruk, W. Sledz, A. Mengoni and E. Lojkowska
    Citation: BMC Genomics 2018 19:751
    Content type: Research article Published on:

  13. Plant-bacteria associations have been extensively studied for their potential in increasing crop productivity in a sustainable manner. Serratia marcescens is a species of Enterobacteriaceae found in a wide range ...

    Authors: Filipe P Matteoli, Hemanoel Passarelli-Araujo, Régis Josué A Reis, Letícia O da Rocha, Emanuel M de Souza, L Aravind, Fabio L Olivares and Thiago M Venancio
    Citation: BMC Genomics 2018 19:750
    Content type: Research article Published on:

  14. Pacific salmon (Oncorhynchus spp.) serve as good biological indicators of the breadth of climate warming effects on fish because their anadromous life cycle exposes them to environmental challenges in both marine...

    Authors: Arash Akbarzadeh, Oliver P Günther, Aimee Lee Houde, Shaorong Li, Tobi J Ming, Kenneth M Jeffries, Scott G Hinch and Kristina M Miller
    Citation: BMC Genomics 2018 19:749
    Content type: Research article Published on:

  16. Transmissible gastroenteritis virus (TGEV) infection can activate NF-κB pathway in porcine intestinal epithelial cells and result in severe inflammation. Non-coding RNAs (ncRNAs) are not translated into protei...

    Authors: Xuelian Ma, Xiaomin Zhao, Zhichao Zhang, Jianxiong Guo, Lijuan Guan, Juejun Li, Mi Mi, Yong Huang and Dewen Tong
    Citation: BMC Genomics 2018 19:747
    Content type: Research article Published on:

  17. Transgenerational plasticity occurs when the environmental experience of an organism modifies the growth and development of its progeny. Leaf damage in Mimulus guttatus exhibits transgenerational plasticity media...

    Authors: Jack M Colicchio, John K Kelly and Lena C Hileman
    Citation: BMC Genomics 2018 19:746
    Content type: Research article Published on:

  18. Long noncoding RNAs (lncRNAs) are transcripts longer than 200 bp that do not encode proteins but nonetheless have been shown to play important roles in various biological processes in plants. Brassica napus is an...

    Authors: Enhui Shen, Xintian Zhu, Shuijin Hua, Hongyu Chen, Chuyu Ye, Longhua Zhou, Qing Liu, Qian-Hao Zhu, Longjiang Fan and Xi Chen
    Citation: BMC Genomics 2018 19:745
    Content type: Research article Published on:

  20. Studies combining experimental evolution and next-generation sequencing have found that adaptation in sexually reproducing populations is primarily fueled by standing genetic variation. Consequently, the respo...

    Authors: Mark A Phillips, Grant A Rutledge, James N Kezos, Zachary S Greenspan, Andrew Talbott, Sara Matty, Hamid Arain, Laurence D Mueller, Michael R Rose and Parvin Shahrestani
    Citation: BMC Genomics 2018 19:743
    Content type: Research article Published on:

  21. Gray leaf spot (GLS), which is caused by the necrotrophic fungi Cercospora zeae-maydis and Cercospora zeina, is one of the most impactful diseases in maize worldwide. The aim of the present study is to identify t...

    Authors: Yang Yu, Jianyang Shi, Xiyang Li, Jian Liu, Qi Geng, Haichun Shi, Yongpei Ke and Qun Sun
    Citation: BMC Genomics 2018 19:742
    Content type: Research article Published on:

  22. Biocontrol of bacterial pathogens by bacteriophages (phages) represents a promising strategy. Vibrio alginolyticus, a gram-negative bacterium, is a notorious pathogen responsible for the loss of economically impo...

    Authors: Peng Luo, Long Yun, Yingying Li, Yushun Tian, Qiuting Liu, Wen Huang and Chaoqun Hu
    Citation: BMC Genomics 2018 19:741
    Content type: Research article Published on:

  23. This study investigated if the allele effect of a given single nucleotide polymorphism (SNP) for crossbred performance in pigs estimated in a genomic prediction model differs depending on its breed-of-origin, ...

    Authors: Claudia A Sevillano, Jan ten Napel, Simone E F Guimarães, Fabyano F Silva and Mario P L Calus
    Citation: BMC Genomics 2018 19:740
    Content type: Research article Published on:

  24. The hop plant (Humulus lupulus L.) is a valuable source of several secondary metabolites, such as flavonoids, bitter acids, and essential oils. These compounds are widely implicated in the beer brewing industry a...

    Authors: Ajay Kumar Mishra, Ganesh Selvaraj Duraisamy, Mudra Khare, Tomáš Kocábek, Jernej Jakse, Jindřich Bříza, Josef Patzak, Teruo Sano and Jaroslav Matoušek
    Citation: BMC Genomics 2018 19:739
    Content type: Research article Published on:

  25. Transcription factors are essential regulators of gene expression and play critical roles in development, differentiation, and in many cancers. To carry out their regulatory programs, they must cooperate in ne...

    Authors: Zachary B. Abrams, Mark Zucker, Min Wang, Amir Asiaee Taheri, Lynne V. Abruzzo and Kevin R. Coombes
    Citation: BMC Genomics 2018 19:738
    Content type: Research article Published on:

  26. Embryonic and fetal exposure to maternal obesity causes several maladaptive morphological and epigenetic changes in exposed offspring. The timing of these events is unclear, but changes can be observed even af...

    Authors: Sarah R. McCoski, McCauley T. Vailes, Connor E. Owens, Rebecca R. Cockrum and Alan D. Ealy
    Citation: BMC Genomics 2018 19:737
    Content type: Research article Published on:

  27. Capacitation, a prerequisite for oocyte fertilization, is a complex process involving series of structural and functional changes in sperms such as membrane modifications, modulation of enzyme activities, and ...

    Authors: Yuan Li, Rong-Hong Li, Ming-Xia Ran, Yan Zhang, Kai Liang, Ying-Nan Ren, Wen-Cheng He, Ming Zhang, Guang-Bin Zhou, Izhar Hyder Qazi and Chang-Jun Zeng
    Citation: BMC Genomics 2018 19:736
    Content type: Research article Published on:

  28. Long noncoding RNAs (lncRNAs) are known to play important roles in different cell contexts, including cancers. However, little is known about lncRNAs in cholangiocarcinoma (CCA), a cholangiocyte malignancy wit...

    Authors: Bo-Wei Han, Hua Ye, Pan-Pan Wei, Bo He, Cai Han, Zhen-Hua Chen, Yue-Qin Chen and Wen-Tao Wang
    Citation: BMC Genomics 2018 19:735
    Content type: Research article Published on:

  29. Nuclear reprogramming reinstates totipotency or pluripotency in somatic cells by changing their gene transcription profile. This technology is widely used in medicine, animal husbandry and other industries. Ho...

    Authors: Yong Liu, Fengrui Wu, Ling Zhang, Xiaoqing Wu, Dengkun Li, Jing Xin, Juan Xie, Feng Kong, Wenying Wang, Qiaoqin Wu, Di Zhang, Rong Wang, Shaorong Gao and Wenyong Li
    Citation: BMC Genomics 2018 19:734
    Content type: Research article Published on:

  30. The striped catfish, Pangasianodon hypophthalmus, is a freshwater and benthopelagic fish common in the Mekong River delta. Catfish constitute a valuable source of dietary protein. Therefore, they are cultured wor...

    Authors: Oanh T. P. Kim, Phuong T. Nguyen, Eiichi Shoguchi, Kanako Hisata, Thuy T. B. Vo, Jun Inoue, Chuya Shinzato, Binh T. N. Le, Koki Nishitsuji, Miyuki Kanda, Vu H. Nguyen, Hai V. Nong and Noriyuki Satoh
    Citation: BMC Genomics 2018 19:733
    Content type: Research article Published on:

  31. After a short gestation, marsupials give birth to immature neonates with lungs that are not fully developed and in early life the neonate partially relies on gas exchange through the skin. Therefore, significa...

    Authors: Vengamanaidu Modepalli, Amit Kumar, Julie A Sharp, Norman R Saunders, Kevin R Nicholas and Christophe Lefèvre
    Citation: BMC Genomics 2018 19:732
    Content type: Research article Published on:

  32. The high-density lipoprotein receptor SR-B1 mediates cellular uptake of several lipid species, including cholesterol and vitamin E. During early mouse development, SR-B1 is located in the maternal-fetal interf...

    Authors: Nicolás Santander, Carlos Lizama, Leandro Murgas, Sebastián Contreras, Alberto J. M. Martin, Paz Molina, Alonso Quiroz, Katherine Rivera, Francisca Salas-Pérez, Alejandro Godoy, Attilio Rigotti and Dolores Busso
    Citation: BMC Genomics 2018 19:731
    Content type: Research article Published on:

  33. The majority of eukaryote genomes can be actively transcribed into non-coding RNAs (ncRNAs), which are functionally important in development and evolution. In the study of maize, an important crop for both hum...

    Authors: Dandan Li, Huili Qiao, Wujie Qiu, Xin Xu, Tiemei Liu, Qianling Jiang, Renyi Liu, Zhujin Jiao, Kun Zhang, Lijun Bi, Runsheng Chen and Yunchao Kan
    Citation: BMC Genomics 2018 19:730
    Content type: Research article Published on:

  34. Long noncoding RNAs (LncRNAs) play important roles in fundamental biological processes. However, knowledge about the genome-wide distribution and stress-related expression of lncRNAs in tilapia is still limited.

    Authors: Bi Jun Li, Dan Li Jiang, Zi Ning Meng, Yong Zhang, Zong Xian Zhu, Hao Ran Lin and Jun Hong Xia
    Citation: BMC Genomics 2018 19:729
    Content type: Research article Published on:

  35. Cytokinin is a classical phytohormone that plays important roles in numerous plant growth and development processes. In plants, cytokinin signals are transduced by a two-component system, which involves many g...

    Authors: Lijun Kong, Kun Zhao, Yingying Gao, Liming Miao, Chaoquan Chen, Hang Deng, Zhenning Liu and Xiaolin Yu
    Citation: BMC Genomics 2018 19:728
    Content type: Research article Published on:

  36. Flowering is a critical reproductive process in higher plants. Timing of optimal flowering depends upon the coordination among seasonal environmental cues. For cool season grasses, such as Dactylis glomerata, ver...

    Authors: Guangyan Feng, Lei Xu, Jianping Wang, Gang Nie, Bradley Shaun Bushman, Wengang Xie, Haidong Yan, Zhongfu Yang, Hao Guan, Linkai Huang and Xinquan Zhang
    Citation: BMC Genomics 2018 19:727
    Content type: Research article Published on:

  37. MADS-box genes encode transcription factors that are known to be involved in several aspects of plant growth and development, especially in floral organ specification. To date, the comprehensive analysis of po...

    Authors: Huhu Gao, Ziming Wang, Silu Li, Menglu Hou, Yao Zhou, Yaqi Zhao, Guojun Li, Hua Zhao and Haoli Ma
    Citation: BMC Genomics 2018 19:726
    Content type: Research article Published on:

  40. Captive animal populations, be it for food production or conservation programmes, are often maintained at densities far beyond those in natural environments, which can have profound effects on behaviour, immun...

    Authors: Amy R Ellison, Tamsyn M Uren Webster, Olivier Rey, Carlos Garcia de Leaniz, Sofia Consuegra, Pablo Orozco-terWengel and Jo Cable
    Citation: BMC Genomics 2018 19:723
    Content type: Research article Published on:

  41. Transposome-based technologies have enabled the streamlined production of sequencer-ready DNA libraries; however, current methods are highly sensitive to the amount and quality of input nucleic acid.

    Authors: Stephen Bruinsma, Joshua Burgess, Daniel Schlingman, Agata Czyz, Natalie Morrell, Catherine Ballenger, Heather Meinholz, Lee Brady, Anupama Khanna, Lindsay Freeberg, Rosamond G Jackson, Pascale Mathonet, Susan C Verity, Andrew F Slatter, Rooz Golshani, Haiying Grunenwald…
    Citation: BMC Genomics 2018 19:722
    Content type: Research article Published on:

  42. The Ambrosia Fusarium Clade phytopathogenic Fusarium fungi species have a symbiotic relationship with ambrosia beetles in the genus Euwallacea (Coleoptera: Curculionidae). Related beetle species referred to as Eu...

    Authors: Diana Sánchez-Rangel, Eric-Edmundo Hernández-Domínguez, Claudia-Anahí Pérez-Torres, Randy Ortiz-Castro, Emanuel Villafán, Benjamín Rodríguez-Haas, Alexandro Alonso-Sánchez, Abel López-Buenfil, Nayeli Carrillo-Ortiz, Lervin Hernández-Ramos and Enrique Ibarra-Laclette
    Citation: BMC Genomics 2018 19:721
    Content type: Research article Published on:

  43. Pentatricopeptide-repeat proteins (PPRs) are characterized by tandem arrays of a degenerate 35-amino-acid (PPR motifs), which can bind RNA strands and participate in post-transcription. PPR proteins family is ...

    Authors: Guanglong Chen, Yu Zou, Jihong Hu and Yi Ding
    Citation: BMC Genomics 2018 19:720
    Content type: Research article Published on:

  44. High-throughput proteomics was used to determine the role of the fish liver in defense responses to bacterial infection. This was done using a rainbow trout (Oncorhynchus mykiss) model following infection with Ae...

    Authors: Dwight R Causey, Moritz A N Pohl, David A Stead, Samuel A M Martin, Christopher J Secombes and Daniel J Macqueen
    Citation: BMC Genomics 2018 19:719
    Content type: Research article Published on:

  45. Analysis of polymorphic microsatellite markers (STR) is a helpful genotyping technique to differentiate Candida parapsilosis sensu stricto isolates. The aim of this study is to develop and perform an initial vali...

    Authors: Camino Trobajo-Sanmartín, Guillermo Ezpeleta, Célia Pais, Elena Eraso and Guillermo Quindós
    Citation: BMC Genomics 2018 19:718
    Content type: Methodology article Published on:

  46. 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:

  47. Streptococcus agalactiae (Group B Streptococcus, GBS) is a common bacteria species infecting both human and bovine. Previous studies have shown that the GBS isolated from human and bovine are mostly unrelated and...

    Authors: Rui Wang, Liping Li, Ting Huang, Yan Huang, Weiyi Huang, Xiuying Yang, Aiying Lei and Ming Chen
    Citation: BMC Genomics 2018 19:716
    Content type: Research article Published on:

  48. 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:

  49. Prosthetic joint infections are clinically difficult to diagnose and treat. Previously, we demonstrated metagenomic sequencing on an Illumina MiSeq replicates the findings of current gold standard microbiologi...

    Authors: Nicholas D Sanderson, Teresa L Street, Dona Foster, Jeremy Swann, Bridget L Atkins, Andrew J Brent, Martin A McNally, Sarah Oakley, Adrian Taylor, Tim E A Peto, Derrick W Crook and David W Eyre
    Citation: BMC Genomics 2018 19:714
    Content type: Methodology article Published on:

  50. Following the publication of this article [1], the authors noted two typographical errors: one in Table 1 with regard to the location of the Basilisk Phage, which was incorrectly captured as “Kutaisis, country...

    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 19:713
    Content type: Correction Published on:

    The original article was published in BMC Genomics 2018 19:685

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BMC Genomics

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