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  1. Shotgun proteomics utilizes a database search strategy to compare detected mass spectra to a library of theoretical spectra derived from reference genome information. As such, the robustness of proteomics resu...

    Authors: J. Michael Proffitt, Jeremy Glenn, Anthony J. Cesnik, Avinash Jadhav, Michael R. Shortreed, Lloyd M. Smith, Kylie Kavanagh, Laura A. Cox and Michael Olivier
    Citation: BMC Genomics 2017 18:877
    Content type: Research article Published on:

  2. Diphtheria remains a major public health concern with multiple recent outbreaks around the world. Moreover, invasive non-toxigenic strains have emerged globally causing severe infections. A diphtheria epidemic...

    Authors: Steffen Grosse-Kock, Valentina Kolodkina, Edward C. Schwalbe, Jochen Blom, Andreas Burkovski, Paul A. Hoskisson, Sylvain Brisse, Darren Smith, Iain C. Sutcliffe, Leonid Titov and Vartul Sangal
    Citation: BMC Genomics 2017 18:873
    Content type: Research article Published on:

  3. The cyclic nucleotide-gated ion channel (CNGC) family affects the uptake of cations, growth, pathogen defence, and thermotolerance in plants. However, the systematic identification, origin and function of this...

    Authors: Kaleem U. Kakar, Zarqa Nawaz, Khadija Kakar, Essa Ali, Abdulwareth A. Almoneafy, Raqeeb Ullah, Xue-liang Ren and Qing-Yao Shu
    Citation: BMC Genomics 2017 18:869
    Content type: Research article Published on:

  4. Erwinia amylovora is generally considered to be a homogeneous species in terms of phenotypic and genetic features. However, strains show variation in their virulence, particularly on h...

    Authors: Joanna Puławska, Monika Kałużna, Wojciech Warabieda and Artur Mikiciński
    Citation: BMC Genomics 2017 18:868
    Content type: Research article Published on:

  5. The olfactory system enables organisms to detect chemical cues in the environment and can signal the availability of food or the presence of a predator. Appropriate behavioral responses to these chemical cues ...

    Authors: Elizabeth B. Brown, Cody Patterson, Rayanne Pancoast and Stephanie M. Rollmann
    Citation: BMC Genomics 2017 18:867
    Content type: Research article Published on:

  6. Viruses undergo extensive evolutionary selection for efficient replication which effects, among others, their codon distribution. In the current study, we aimed at understanding the way evolution shapes the co...

    Authors: Oriah Mioduser, Eli Goz and Tamir Tuller
    Citation: BMC Genomics 2017 18:866
    Content type: Research article Published on:

  7. The WUR1000125 (WUR) single nucleotide polymorphism (SNP) can be used as a genetic marker for host response to porcine reproductive and respiratory syndrome (PRRS), PRRS vaccination, and co-infection with porcine...

    Authors: Jenelle R. Dunkelberger, Nick V. L. Serão, Ziqing Weng, Emily H. Waide, Megan C. Niederwerder, Maureen A. Kerrigan, Joan K. Lunney, Raymond R. R. Rowland and Jack C. M. Dekkers
    Citation: BMC Genomics 2017 18:865
    Content type: Research article Published on:

  9. Monoallelic expression of autosomal genes has been implicated in human psychiatric disorders. However, there is a paucity of allelic expression studies in human brain cells at the single cell and genome wide l...

    Authors: Dejian Zhao, Mingyan Lin, Erika Pedrosa, Herbert M. Lachman and Deyou Zheng
    Citation: BMC Genomics 2017 18:860
    Content type: Research article Published on:

  10. Pseudomonas putida is a Gram-negative, non-fermenting bacterium frequently encountered in various environmental niches. P. putida rarely causes disease in humans, though serious infect...

    Authors: Silke Peter, Philipp Oberhettinger, Leonard Schuele, Ariane Dinkelacker, Wichard Vogel, Daniela Dörfel, Daniela Bezdan, Stephan Ossowski, Matthias Marschal, Jan Liese and Matthias Willmann
    Citation: BMC Genomics 2017 18:859
    Content type: Research Published on:

  11. Lethal recessive variation can cause prenatal death of homozygous offspring. Although usually present at low-frequency in populations, the impact on individual fitness can be substantial. Until recently, the p...

    Authors: Martijn F. L. Derks, Hendrik-Jan Megens, Mirte Bosse, Marcos S. Lopes, Barbara Harlizius and Martien A. M. Groenen
    Citation: BMC Genomics 2017 18:858
    Content type: Research article Published on:

  12. Negative energy balance (NEB) is an imbalance between energy intake and energy requirements for lactation and body maintenance affecting high-yielding dairy cows and is of considerable economic importance due ...

    Authors: Daragh Matthews, Michael G. Diskin, David A. Kenny, Christopher J. Creevey, Kate Keogh and Sinead M. Waters
    Citation: BMC Genomics 2017 18:857
    Content type: Research article Published on:

  13. Global trend of the introduction of high levels of relatively cheap carbohydrates to reduce the amount of costly protein in the aquatic animal feed production has affected the aquaculture of an economically im...

    Authors: Wassana Prisingkorn, Panita Prathomya, Ivan Jakovlić, Han Liu, Yu-Hua Zhao and Wei-Min Wang
    Citation: BMC Genomics 2017 18:856
    Content type: Research article Published on:

  14. Chinese jujube (Ziziphus jujuba Mill.) is one of the most important members in the Rhamnaceae family. The whole genome sequence and more than 30,000 proteins of Chinese jujube have been obtained in 2014. Mitogen-...

    Authors: Zhiguo Liu, Liman Zhang, Chaoling Xue, Hu Fang, Jin Zhao and Mengjun Liu
    Citation: BMC Genomics 2017 18:855
    Content type: Research article Published on:

  15. Tissue regeneration requires a series of steps, beginning with generation of the necessary cell mass, followed by cell migration into damaged area, and ending with differentiation and integration with surround...

    Authors: Ke’ale W. Louie, Alfonso Saera-Vila, Phillip E. Kish, Justin A. Colacino and Alon Kahana
    Citation: BMC Genomics 2017 18:854
    Content type: Research article Published on:

  16. Genotyping and whole-genome sequencing data have been generated for hundreds of thousands of cattle. International consortia used these data to compile imputation reference panels that facilitate the imputatio...

    Authors: Hubert Pausch, Reiner Emmerling, Birgit Gredler-Grandl, Ruedi Fries, Hans D. Daetwyler and Michael E. Goddard
    Citation: BMC Genomics 2017 18:853
    Content type: Research Published on:

  17. Fragaria vesca or ‘woodland strawberry’ has emerged as an attractive model for the study of ripening of non-climacteric fruit. It has several advantages, such as its small genome and i...

    Authors: María Cecilia Opazo, Rodrigo Lizana, Yazmina Stappung, Thomas M. Davis, Raúl Herrera and María Alejandra Moya-León
    Citation: BMC Genomics 2017 18:852
    Content type: Research article Published on:

  18. Switchgrass is a crop with many desirable traits for bioenergy production. Plant genomes have high DNA methylation levels throughout genes and transposable elements and DNA methylation is known to play a role ...

    Authors: Mollee Dworkin, Shaojun Xie, Malay Saha, Jyothi Thimmapuram and Venu (Kal) Kalavacharla
    Citation: BMC Genomics 2017 18:851
    Content type: Research article Published on:

  19. A vast amount of microarray data on transcriptomic response to injury has been collected so far. We designed the analysis in order to identify the genes displaying significant changes in expression after wound...

    Authors: Piotr Andrzej Sass, Michał Dąbrowski, Agata Charzyńska and Paweł Sachadyn
    Citation: BMC Genomics 2017 18:850
    Content type: Research article Published on:

  20. Sclerotinia Stem Rot (SSR), caused by the fungal pathogen Sclerotinia sclerotiorum, is ubiquitous in cooler climates where soybean crops are grown. Breeding for resistance to SSR remains challenging in crops like...

    Authors: Wei Wei, Ana Carolina Oliveira Mesquita, Adriana de A. Figueiró, Xing Wu, Shilpa Manjunatha, Daniel P. Wickland, Matthew E. Hudson, Fernando C. Juliatti and Steven J. Clough
    Citation: BMC Genomics 2017 18:849
    Content type: Research article Published on:

  21. Simple sequence repeats (SSR), also called microsatellites, have been widely used as genetic markers, and have been extensively studied in some model insects. At present, the genomes of more than 100 insect sp...

    Authors: Simin Ding, Shuping Wang, Kang He, Mingxing Jiang and Fei Li
    Citation: BMC Genomics 2017 18:848
    Content type: Research article Published on:

  23. The plant growth promoting rhizobacterium Paenibacillus riograndensis SBR5 is a promising candidate to serve as crop inoculant. Despite its potential in providing environmental and economic benefits, the species

    Authors: Luciana Fernandes Brito, Marta Irla, Jörn Kalinowski and Volker F. Wendisch
    Citation: BMC Genomics 2017 18:846
    Content type: Research article Published on:

  24. Autogamy in cultivated tomato varieties is a derived trait from wild type tomato plants, which are mostly allogamous. However, environmental stresses can cause morphological defects in tomato flowers and hinde...

    Authors: Changtian Pan, Lei Ye, Yi Zheng, Yan Wang, Dandan Yang, Xue Liu, Lifei Chen, Youwei Zhang, Zhangjun Fei and Gang Lu
    Citation: BMC Genomics 2017 18:843
    Content type: Research article Published on:

  25. Calmodulin-like (CML) proteins are a primary family of plant-specific Ca2+ sensors that specifically bind to Ca2+ and deliver a Ca2+ signal. CML proteins have been identified and characterized in many plant speci...

    Authors: Shanshan Nie, Minjuan Zhang and Lugang Zhang
    Citation: BMC Genomics 2017 18:842
    Content type: Research Published on:

  26. Infants born prematurely, particularly extremely low birth weight infants (ELBW) have altered gut microbial communities. Factors such as maternal health, gut immaturity, delivery mode, and antibiotic treatment...

    Authors: Cristina Alcon-Giner, Shabhonam Caim, Suparna Mitra, Jennifer Ketskemety, Udo Wegmann, John Wain, Gusztav Belteki, Paul Clarke and Lindsay J. Hall
    Citation: BMC Genomics 2017 18:841
    Content type: Methodology article Published on:

  27. Complete mitochondrial genomes are much better suited for the taxonomic identification and phylogenetic studies of nematodes than morphology or traditionally-used molecular markers, but they remain unavailable...

    Authors: Hong Zou, Ivan Jakovlić, Rong Chen, Dong Zhang, Jin Zhang, Wen-Xiang Li and Gui-Tang Wang
    Citation: BMC Genomics 2017 18:840
    Content type: Research article Published on:

  28. There is great potential for the genetic improvement of oil palm yield. Traditional progeny tests allow accurate selection but limit the number of individuals evaluated. Genomic selection (GS) could overcome t...

    Authors: David Cros, Stéphanie Bocs, Virginie Riou, Enrique Ortega-Abboud, Sébastien Tisné, Xavier Argout, Virginie Pomiès, Leifi Nodichao, Zulkifli Lubis, Benoit Cochard and Tristan Durand-Gasselin
    Citation: BMC Genomics 2017 18:839
    Content type: Research article Published on:

  29. ‘Apogee’ has a very short life cycle among wheat cultivars (flowering 25 days after planting under a long day and without vernalization), and it is a unique genetic material that can be used to accelerate cycl...

    Authors: Genqiao Li, Rungravee Boontung, Carol Powers, Vikas Belamkar, Tianrong Huang, Fang Miao, P. Stephen Baenziger and Liuling Yan
    Citation: BMC Genomics 2017 18:838
    Content type: Research article Published on:

  30. Citrus worldwide is threatened by huanglongbing (HLB) and tristeza diseases caused by ‘Candidatus Liberibacter asiaticus’ (CaLas) and Citrus tristeza virus (CTV). Although the pathogens are members of the α-prote...

    Authors: Shimin Fu, Jonathan Shao, Cristina Paul, Changyong Zhou and John S. Hartung
    Citation: BMC Genomics 2017 18:837
    Content type: Research article Published on:

  31. Typhoid fever is an acute systemic infection of humans caused by Salmonella enterica subspecies enterica serovar Typhi (S. Typhi). In chronic carriers, the bacteria survive the harsh environment of the gallbladde...

    Authors: Khee Chian Jason Chin, Todd Duane Taylor, Maxime Hebrard, Kogaan Anbalagan, Marjan Ganjali Dashti and Kia Kien Phua
    Citation: BMC Genomics 2017 18:836
    Content type: Research article Published on:

  32. Antibiotic resistance is a major problem for human health. Multidrug resistance efflux pumps, especially those of the Resistance-Nodulation-Cell Division (RND) family, are major contributors to high-level anti...

    Authors: Elena Perrin, Marco Fondi, Emanuele Bosi, Alessio Mengoni, Silvia Buroni, Viola Camilla Scoffone, Miguel Valvano and Renato Fani
    Citation: BMC Genomics 2017 18:834
    Content type: Research article Published on:

  33. Cold is a major abiotic stress limiting the production of tropical and subtropical crops in new production areas. Sugarcane (Saccharum spp.) originates from the tropics but is cultivated primarily in the sub-trop...

    Authors: Yuting Yang, Xu Zhang, Yachun Su, Jiake Zou, Zhoutao Wang, Liping Xu and Youxiong Que
    Citation: BMC Genomics 2017 18:833
    Content type: Research article Published on:

  34. Babesia ovata, belonging to the phylum Apicomplexa, is an infectious parasite of bovids. It is not associated with the manifestation of severe symptoms, in contrast to other types of b...

    Authors: Junya Yamagishi, Masahito Asada, Hassan Hakimi, Takeshi Q. Tanaka, Chihiro Sugimoto and Shin-ichiro Kawazu
    Citation: BMC Genomics 2017 18:832
    Content type: Research article Published on:

  35. Viral populations are complex, dynamic, and fast evolving. The evolution of groups of closely related viruses in a competitive environment is termed quasispecies. To fully understand the role that quasispecies...

    Authors: Yuan O. Zhu, Pauline P. K. Aw, Paola Florez de Sessions, Shuzhen Hong, Lee Xian See, Lewis Z. Hong, Andreas Wilm, Chen Hao Li, Stephane Hue, Seng Gee Lim, Niranjan Nagarajan, William F. Burkholder and Martin Hibberd
    Citation: BMC Genomics 2017 18:829
    Content type: Research article Published on:

  36. Ferrous iron (Fe) and zinc (Zn) at high concentration in the soil cause heavy metal toxicity and greatly affect rice yield and quality. To improve rice production, understanding the genetic and molecular resis...

    Authors: Jian Zhang, Kai Chen, Yunlong Pang, Shahzad Amir Naveed, Xiuqin Zhao, Xiaoqian Wang, Yun Wang, Michael Dingkuhn, Julie Pasuquin, Zhikang Li and Jianlong Xu
    Citation: BMC Genomics 2017 18:828
    Content type: Research article Published on:

  37. The plant-specific gibberellic acid stimulated Arabidopsis (GASA) gene family is critical for plant development. However, little is known about these genes, particularly in fruit tree species.

    Authors: Sheng Fan, Dong Zhang, Lizhi Zhang, Cai Gao, Mingzhi Xin, Muhammad Mobeen Tahir, Youmei Li, Juanjuan Ma and Mingyu Han
    Citation: BMC Genomics 2017 18:827
    Content type: Research article Published on:

  38. Molecular signatures are collections of genes characteristic of a particular cell type, tissue, disease, or perturbation. Signatures can also be used to interpret expression profiles generated from heterogeneo...

    Authors: David Lopez, Dennis Montoya, Michael Ambrose, Larry Lam, Leah Briscoe, Claire Adams, Robert L. Modlin and Matteo Pellegrini
    Citation: BMC Genomics 2017 18:824
    Content type: Software Published on:

  39. Interpretation of large-scale data is very challenging and currently there is scarcity of web tools which support automated visualization of a variety of high throughput genomics and transcriptomics data and f...

    Authors: Vineet Jha, Gulzar Singh, Shiva Kumar, Amol Sonawane, Abhay Jere and Krishanpal Anamika
    Citation: BMC Genomics 2017 18:823
    Content type: Software Published on:

  40. Higher fasting Growth Hormone (GH) has been associated with increased cardiovascular morbidity and mortality. Our objective was to find genetic determinants of fasting GH in order to facilitate future efforts ...

    Authors: Erik Hallengren, Peter Almgren, Malin Svensson, Widet Gallo, Gunnar Engström, Margaretha Persson and Olle Melander
    Citation: BMC Genomics 2017 18:822
    Content type: Research article Published on:

  41. Skeletal muscle development is closely linked to meat production and its quality. This study is the first to quantify the proteomes and metabolomes of breast muscle in two distinct chicken breeds at embryonic ...

    Authors: Ranran Liu, Hongyang Wang, Jie Liu, Jie Wang, Maiqing Zheng, Xiaodong Tan, Siyuan Xing, Huanxian Cui, Qinghe Li, Guiping Zhao and Jie Wen
    Citation: BMC Genomics 2017 18:816
    Content type: Research article Published on:

  42. Small auxin-up RNA (SAUR) gene family is the largest family of early auxin response genes in higher plants, which have been implicated in the regulation of multiple biological processes. However, no comprehensive...

    Authors: Xihua Li, Guoyuan Liu, Yanhui Geng, Man Wu, Wenfeng Pei, Honghong Zhai, Xinshan Zang, Xingli Li, Jinfa Zhang, Shuxun Yu and Jiwen Yu
    Citation: BMC Genomics 2017 18:815
    Content type: Research article Published on:

  43. Yeast infections are often connected with formation of biofilms that are extremely difficult to eradicate. An excellent model system for deciphering multifactorial determinants of yeast biofilm development is ...

    Authors: Jana Maršíková, Derek Wilkinson, Otakar Hlaváček, Gregor D. Gilfillan, Alexandru Mizeranschi, Timothy Hughes, Markéta Begany, Stanislava Rešetárová, Libuše Váchová and Zdena Palková
    Citation: BMC Genomics 2017 18:814
    Content type: Research article Published on:

  44. Flagella have been lost in the vegetative phase of the diatom life cycle, but they are still present in male gametes of centric species, thereby representing a hallmark of sexual reproduction. This process, be...

    Authors: Deepak Nanjappa, Remo Sanges, Maria I. Ferrante and Adriana Zingone
    Citation: BMC Genomics 2017 18:813
    Content type: Research article Published on:

  47. Gene flow between species, across ploidal levels, and even between evolutionary lineages is a common phenomenon in the genus Arabidopsis. However, apart from two genetically fully stabilized allotetraploid specie...

    Authors: Nora Hohmann and Marcus A. Koch
    Citation: BMC Genomics 2017 18:810
    Content type: Research article Published on:

    The Correction to this article has been published in BMC Genomics 2018 19:245

  48. Haliotis diversicolor is commercially important species. The trochophore and veliger are distinct larval stages in gastropod development. Their development involves complex morphologic...

    Authors: Guilan Di, Xianghui Kong, Xiulian Miao, Yifang Zhang, Miaoqin Huang, Yuting Gu, Weiwei You, Jianxin Zhang and Caihuan Ke
    Citation: BMC Genomics 2017 18:809
    Content type: Research article Published on:

  49. Staphylococcus argenteus and S. schweitzeri, were recently proposed as novel species within S. aureus complex (SAC). S. argenteus has been reported in many countries and can threaten h...

    Authors: Dao-Feng Zhang, Xiao-Yang Zhi, Jing Zhang, George C. Paoli, Yan Cui, Chunlei Shi and Xianming Shi
    Citation: BMC Genomics 2017 18:808
    Content type: Research article Published on:

  50. The bacterial pathogen Streptococcus pneumoniae colonizes the nasopharynx prior to causing disease, necessitating successful competition with the resident microflora. Cytokines of the IL-17 family are important i...

    Authors: Neil D. Ritchie, Umer Z. Ijaz and Tom J. Evans
    Citation: BMC Genomics 2017 18:807
    Content type: Research article Published on:

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BMC Genomics

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