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  1. Gibberella ear rot (GER) is one of the most economically important fungal diseases of maize in the temperate zone due to moldy grain contaminated with health threatening mycotoxins. To develop resistant genoty...

    Authors: Aida Z. Kebede, Anne Johnston, Danielle Schneiderman, Whynn Bosnich and Linda J. Harris
    Citation: BMC Genomics 2018 19:131
    Content type: Research article Published on:

  2. Chlamydia trachomatis (Ct) plasmid has been shown to encode genes essential for infection. We evaluated the population structure of Ct using whole-genome sequence data (WGS). In particular, the relationship betwe...

    Authors: Bart Versteeg, Sylvia M. Bruisten, Yvonne Pannekoek, Keith A. Jolley, Martin C. J. Maiden, Arie van der Ende and Odile B. Harrison
    Citation: BMC Genomics 2018 19:130
    Content type: Research article Published on:

  3. Infertility is a longstanding limitation in livestock production with important economic impact for the cattle industry. Female reproductive traits are polygenic and lowly heritable in nature, thus selection f...

    Authors: Sarah E. Dickinson, Brock A. Griffin, Michelle F. Elmore, Lisa Kriese-Anderson, Joshua B. Elmore, Paul W. Dyce, Soren P. Rodning and Fernando H. Biase
    Citation: BMC Genomics 2018 19:129
    Content type: Research article Published on:

  5. Maternal separation models in rodents are widely used to establish molecular mechanisms underlying prolonged effects of early life adversity on neurobiological and behavioral outcomes in adulthood. However, gl...

    Authors: Nikita I. Ershov, Natalya P. Bondar, Arina A. Lepeshko, Vasiliy V. Reshetnikov, Julia A. Ryabushkina and Tatiana I. Merkulova
    Citation: BMC Genomics 2018 19(Suppl 3):93
    Content type: Research Published on:

    This article is part of a Supplement: Volume 19 Supplement 3

  6. The IWGSC strategy for construction of the reference sequence of the bread wheat genome is based on first obtaining physical maps of the individual chromosomes. Our aim is to develop and use the physical map f...

    Authors: Elena A. Salina, Mikhail A. Nesterov, Zeev Frenkel, Antonina A. Kiseleva, Ekaterina M. Timonova, Federica Magni, Jan Vrána, Jan Šafář, Hana Šimková, Jaroslav Doležel, Abraham Korol and Ekaterina M. Sergeeva
    Citation: BMC Genomics 2018 19(Suppl 3):80
    Content type: Research Published on:

    This article is part of a Supplement: Volume 19 Supplement 3

  7. Estimation of functional connectivity in gene sets derived from genome-wide or other biological experiments is one of the essential tasks of bioinformatics. A promising approach for solving this problem is to ...

    Authors: Evgeny S. Tiys, Timofey V. Ivanisenko, Pavel S. Demenkov and Vladimir A. Ivanisenko
    Citation: BMC Genomics 2018 19(Suppl 3):76
    Content type: Software Published on:

    This article is part of a Supplement: Volume 19 Supplement 3

  8. Cerebrovascular dysfunction plays a critical role in the pathogenesis of Alzheimer’s disease (AD): the most common cause of dementia in the elderly. The involvement of neurovasculature disorders in the progres...

    Authors: Natalia A. Stefanova, Kseniya Yi Maksimova, Ekaterina A. Rudnitskaya, Natalia A. Muraleva and Nataliya G. Kolosova
    Citation: BMC Genomics 2018 19(Suppl 3):75
    Content type: Research Published on:

    This article is part of a Supplement: Volume 19 Supplement 3

  9. The progress of medicine, science, technology, education, and culture improves, year by year, quality of life and life expectancy of the populace. The modern human has a chance to further improve the quality a...

    Authors: Irina V. Chadaeva, Petr M. Ponomarenko, Dmitry A. Rasskazov, Ekaterina B. Sharypova, Elena V. Kashina, Dmitry A. Zhechev, Irina A. Drachkova, Olga V. Arkova, Ludmila K. Savinkova, Mikhail P. Ponomarenko, Nikolay A. Kolchanov, Ludmila V. Osadchuk and Alexandr V. Osadchuk
    Citation: BMC Genomics 2018 19(Suppl 3):0
    Content type: Research Published on:

    This article is part of a Supplement: Volume 19 Supplement 3

  11. The purpose of this study was to identify transcripts of retinal rod photoreceptors of the zebrafish. The zebrafish is an important animal model for vision science due to rapid and tractable development, persi...

    Authors: Chi Sun, Carlos Galicia and Deborah L. Stenkamp
    Citation: BMC Genomics 2018 19:127
    Content type: Research article Published on:

  12. The amount of intramuscular fat can influence the sensory characteristics and nutritional value of beef, thus the selection of animals with adequate fat deposition is important to the consumer. There is growin...

    Authors: Gabriella B. Oliveira, Luciana C. A. Regitano, Aline S. M. Cesar, James M. Reecy, Karina Y. Degaki, Mirele D. Poleti, Andrezza M. Felício, James E. Koltes and Luiz L. Coutinho
    Citation: BMC Genomics 2018 19:126
    Content type: Research article Published on:

  13. Zucchini fruit is susceptible to chilling injury (CI), but the response to low storage temperature is cultivar dependent. Previous reports about the response of zucchini fruit to chilling storage have been foc...

    Authors: F. Carvajal, R. Rosales, F. Palma, S. Manzano, J. Cañizares, M. Jamilena and D. Garrido
    Citation: BMC Genomics 2018 19:125
    Content type: Research article Published on:

  14. Polypyrimidine-tract binding proteins (PTBs) are ubiquitous RNA-binding proteins in plants and animals that play diverse role in RNA metabolic processes. PTB proteins bind to target RNAs through motifs rich in...

    Authors: Kirtikumar R. Kondhare, Amit Kumar, David J. Hannapel and Anjan K. Banerjee
    Citation: BMC Genomics 2018 19:124
    Content type: Research article Published on:

  15. Numerous studies have established a link between maternal diet and the physiological and metabolic phenotypes of their offspring. In previous studies in sheep, we demonstrated that different maternal diets alt...

    Authors: Hadjer Namous, Francisco Peñagaricano, Marcello Del Corvo, Emanuele Capra, David L. Thomas, Alessandra Stella, John L. Williams, Paolo Ajmone Marsan and Hasan Khatib
    Citation: BMC Genomics 2018 19:123
    Content type: Research article Published on:

  16. Meningitis is the most severe manifestation of tuberculosis. It is largely unknown why some people develop pulmonary TB (PTB) and others TB meningitis (TBM); we examined if the genetic background of infecting M. ...

    Authors: Carolien Ruesen, Lidya Chaidir, Arjan van Laarhoven, Sofiati Dian, Ahmad Rizal Ganiem, Hanna Nebenzahl-Guimaraes, Martijn A. Huynen, Bachti Alisjahbana, Bas E. Dutilh and Reinout van Crevel
    Citation: BMC Genomics 2018 19:122
    Content type: Research article Published on:

  17. Based on evolutionary patterns of the vertebrate eye, Walls (1942) hypothesized that early placental mammals evolved primarily in nocturnal habitats. However, not only Eutheria, but all mammals show photic cha...

    Authors: Rui Borges, Warren E. Johnson, Stephen J. O’Brien, Cidália Gomes, Christopher P. Heesy and Agostinho Antunes
    Citation: BMC Genomics 2018 19:121
    Content type: Research article Published on:

  18. The advent and ongoing development of next generation sequencing technologies (NGS) has led to a rapid increase in the rate of human genome re-sequencing data, paving the way for personalized genomics and prec...

    Authors: Matteo Chiara, Silvia Gioiosa, Giovanni Chillemi, Mattia D’Antonio, Tiziano Flati, Ernesto Picardi, Federico Zambelli, David Stephen Horner, Graziano Pesole and Tiziana Castrignanò
    Citation: BMC Genomics 2018 19:120
    Content type: Software Published on:

  19. Maize is well known for its exceptional structural diversity, including copy number variants (CNVs) and presence/absence variants (PAVs), and there is growing evidence for the role of structural variation in m...

    Authors: Aude Darracq, Clémentine Vitte, Stéphane Nicolas, Jorge Duarte, Jean-Philippe Pichon, Tristan Mary-Huard, Céline Chevalier, Aurélie Bérard, Marie-Christine Le Paslier, Peter Rogowsky, Alain Charcosset and Johann Joets
    Citation: BMC Genomics 2018 19:119
    Content type: Research article Published on:

  20. Next-generation sequencing technologies have revolutionized the study of small RNAs (sRNAs) on a genome-wide scale. However, classical sRNA library preparation methods introduce serious bias, mainly during ada...

    Authors: Cloelia Dard-Dascot, Delphine Naquin, Yves d’Aubenton-Carafa, Karine Alix, Claude Thermes and Erwin van Dijk
    Citation: BMC Genomics 2018 19:118
    Content type: Methodology article Published on:

  21. The bacterial pathogen Mycoplasma synoviae can cause subclinical respiratory disease, synovitis, airsacculitis and reproductive tract disease in poultry and is a major cause of economic loss worldwide. The M. syn...

    Authors: Ling Zhu, Muhammad A. Shahid, John Markham, Glenn F. Browning, Amir H. Noormohammadi and Marc S. Marenda
    Citation: BMC Genomics 2018 19:117
    Content type: Research article Published on:

  22. Plant breeding for resistance to agricultural pests is an essential element in the development of integrated crop management systems; however, the molecular and genetic mechanisms underlying resistance are poo...

    Authors: Xiongbing Tu, Zhongkuan Liu and Zehua Zhang
    Citation: BMC Genomics 2018 19:116
    Content type: Research article Published on:

  23. Transposable elements (TEs) are mobile genetic sequences that randomly propagate within their host’s genome. This mobility has the potential to affect gene transcription and cause disease. However, TEs are tec...

    Authors: Erika M. Kvikstad, Paolo Piazza, Jenny C. Taylor and Gerton Lunter
    Citation: BMC Genomics 2018 19:115
    Content type: Methodology article Published on:

  24. Skeletal muscle in livestock develops into meat, an important source of protein and other nutrients for human consumption. The muscle is largely composed of a fixed number of multinucleated myofibers determine...

    Authors: Tomasz Sadkowski, Anna Ciecierska, Jolanta Oprządek and Edyta Balcerek
    Citation: BMC Genomics 2018 19:109
    Content type: Research article Published on:

  25. Ascochyta blight, caused by the fungus Ascochyta lentis, is one of the most destructive lentil diseases worldwide, resulting in over $16 million AUD annual loss in Australia alone. The use of resistant cultivars ...

    Authors: Mahsa Khorramdelazad, Ido Bar, Paul Whatmore, Gabrielle Smetham, Vijay Bhaaskaria, Yuedong Yang, Shahla Hosseini Bai, Nitin Mantri, Yaoqi Zhou and Rebecca Ford
    Citation: BMC Genomics 2018 19:108
    Content type: Research article Published on:

  26. Genomic prediction using Diversity Arrays Technology (DArT) genotype by sequencing platform has not been reported in yellowtail kingfish (Seriola lalandi). The principal aim of this study was to address this know...

    Authors: Nguyen H. Nguyen, H. K. A. Premachandra, Andrzej Kilian and Wayne Knibb
    Citation: BMC Genomics 2018 19:107
    Content type: Research article Published on:

  27. Runs of Homozygosity (ROH) are genomic regions where identical haplotypes are inherited from each parent. Since their first detection due to technological advances in the late 1990s, ROHs have been shedding li...

    Authors: Francisco C. Ceballos, Scott Hazelhurst and Michèle Ramsay
    Citation: BMC Genomics 2018 19:106
    Content type: Methodology article Published on:

  28. Rhizobial symbionts belong to the classes Alphaproteobacteria and Betaproteobacteria (called “alpha” and “beta”-rhizobia). Most knowledge on the genetic basis of symbiosis is based on model strains belonging t...

    Authors: Agnieszka Klonowska, Rémy Melkonian, Lucie Miché, Pierre Tisseyre and Lionel Moulin
    Citation: BMC Genomics 2018 19:105
    Content type: Research article Published on:

  29. The highly prolific breeds of domestic sheep (Ovis aries) are globally valuable genetic resources for sheep industry. Genetic, nutritional and other environmental factors affect prolificacy traits in sheep. To im...

    Authors: Kisun Pokharel, Jaana Peippo, Mervi Honkatukia, Arja Seppälä, Johanna Rautiainen, Nasser Ghanem, Tuula-Marjatta Hamama, Mark A. Crowe, Magnus Andersson, Meng-Hua Li and Juha Kantanen
    Citation: BMC Genomics 2018 19:104
    Content type: Research article Published on:

  30. Due to experimental batch effects, the application of a quantitative transcriptional signature for disease diagnoses commonly requires inter-sample data normalization, which would be hardly applicable under co...

    Authors: Qingzhou Guan, Haidan Yan, Yanhua Chen, Baotong Zheng, Hao Cai, Jun He, Kai Song, You Guo, Lu Ao, Huaping Liu, Wenyuan Zhao, Xianlong Wang and Zheng Guo
    Citation: BMC Genomics 2018 19:99
    Content type: Research article Published on:

  31. While autozygosity as a consequence of selection is well understood, there is limited information on the ability of different methods to measure true inbreeding. In the present study, a gene dropping simulatio...

    Authors: Mehrnush Forutan, Saeid Ansari Mahyari, Christine Baes, Nina Melzer, Flavio Schramm Schenkel and Mehdi Sargolzaei
    Citation: BMC Genomics 2018 19:98
    Content type: Research article Published on:

  32. Formation of nucleosomes along eukaryotic DNA has an impact on transcription. Major transcriptional changes occur in response to low external phosphate (Pi) in plants, but the involvement of chromatin-level me...

    Authors: Qi Zhang, Dong-Ha Oh, Sandra Feuer DiTusa, Mangu V. RamanaRao, Niranjan Baisakh, Maheshi Dassanayake and Aaron P. Smith
    Citation: BMC Genomics 2018 19:97
    Content type: Research article Published on:

  33. With only 2 % of the human genome consisting of protein coding genes, functionality across the rest of the genome has been the subject of much debate. This has gained further impetus in recent years due to a r...

    Authors: Thijessen Naidoo, Per Sjödin, Carina Schlebusch and Mattias Jakobsson
    Citation: BMC Genomics 2018 19:95
    Content type: Research article Published on:

  34. Sex pheromone communication in moths has attracted the attention of evolutionary biologists due to the vast array of pheromone compounds used, addressing questions of how this diversity arose and how male rece...

    Authors: Alessandro Grapputo, Amali H. Thrimawithana, Bernd Steinwender and Richard D. Newcomb
    Citation: BMC Genomics 2018 19:94
    Content type: Research article Published on:

  35. Accumulation of cadmium (Cd) in maize (Zea mays L.) poses a significant risk to human health as it is ingested via the food chain. A genome-wide association study (GWAS) was conducted in a population of 269 maize...

    Authors: Xiongwei Zhao, Longxin Luo, Yanhua Cao, Yajuan Liu, Yuhua Li, Wenmei Wu, Yuzhou Lan, Yiwei Jiang, Shibin Gao, Zhiming Zhang, Yaou Shen, Guangtang Pan and Haijian Lin
    Citation: BMC Genomics 2018 19:91
    Content type: Research article Published on:

  36. SNP panels that uniquely identify an individual are useful for genetic and forensic research. Previously recommended SNP panels are based on DNA profiles and mostly contain intragenic SNPs. With the increasing...

    Authors: Soheil Yousefi, Tooba Abbassi-Daloii, Thirsa Kraaijenbrink, Martijn Vermaat, Hailiang Mei, Peter van ‘t Hof, Maarten van Iterson, Daria V. Zhernakova, Annique Claringbould, Lude Franke, Leen M. ‘t Hart, Roderick C. Slieker, Amber van der Heijden, Peter de Knijff and Peter A. C. ’t Hoen
    Citation: BMC Genomics 2018 19:90
    Content type: Research article Published on:

  37. Meat and egg-type chickens have been selected for several generations for different traits. Artificial and natural selection for different phenotypes can change frequency of genetic variants, leaving particula...

    Authors: Clarissa Boschiero, Gabriel Costa Monteiro Moreira, Almas Ara Gheyas, Thaís Fernanda Godoy, Gustavo Gasparin, Pilar Drummond Sampaio Corrêa Mariani, Marcela Paduan, Aline Silva Mello Cesar, Mônica Corrêa Ledur and Luiz Lehmann Coutinho
    Citation: BMC Genomics 2018 19:83
    Content type: Research article Published on:

  38. The human pathogen Corynebacterium diphtheriae is the causative agent of diphtheria. In the 1990s a large diphtheria outbreak in Eastern Europe was caused by the strain C. diphtheriae NCTC 13129. Although the gen...

    Authors: Manuel Wittchen, Tobias Busche, Andrew H. Gaspar, Ju Huck Lee, Hung Ton-That, Jörn Kalinowski and Andreas Tauch
    Citation: BMC Genomics 2018 19:82
    Content type: Research article Published on:

  39. The interest has been increasing on the phenolic compounds in plants because of their nutritive function as food and the roles regulating plant growth. However, their underlying genetic mechanism in barley is ...

    Authors: Zhigang Han, Jingjie Zhang, Shengguan Cai, Xiaohui Chen, Xiaoyan Quan and Guoping Zhang
    Citation: BMC Genomics 2018 19:81
    Content type: Research article Published on:

  40. DNA methylation has a potential role in controlling gene expression and may, therefore, contribute to salinity adaptation in plants. Caliph medic (Medicago truncatula) is a model legume of moderate salinity toler...

    Authors: Mahmoud W. Yaish, Abbas Al-Lawati, Ibtisam Al-Harrasi and Himanshu Vishwas Patankar
    Citation: BMC Genomics 2018 19:78
    Content type: Research article Published on:

  42. The genetics underlying body mass and growth are key to understanding a wide range of topics in biology, both evolutionary and developmental. Body mass and growth traits are affected by many genetic variants o...

    Authors: Martin Johnsson, Rie Henriksen, Andrey Höglund, Jesper Fogelholm, Per Jensen and Dominic Wright
    Citation: BMC Genomics 2018 19:72
    Content type: Research article Published on:

  43. One of the approaches to detect genetics variants affecting fitness traits is to identify their surrounding genomic signatures of past selection. With established methods for detecting selection signatures and...

    Authors: Christina Marie Rochus, Flavie Tortereau, Florence Plisson-Petit, Gwendal Restoux, Carole Moreno-Romieux, Gwenola Tosser-Klopp and Bertrand Servin
    Citation: BMC Genomics 2018 19:71
    Content type: Research article Published on:

  44. Heat stress is the primary abiotic stress limiting growth of cool-season grass species. The objective of this study was to determine molecular factors and metabolic pathways associated with superior heat toler...

    Authors: Yi Xu and Bingru Huang
    Citation: BMC Genomics 2018 19:70
    Content type: Research article Published on:

  45. Migraine is a common heritable neurovascular disorder typically characterised by episodic attacks of severe pulsating headache and nausea, often accompanied by visual, auditory or other sensory symptoms. Altho...

    Authors: Zachary F. Gerring, Allan F. McRae, Grant W. Montgomery and Dale R. Nyholt
    Citation: BMC Genomics 2018 19:69
    Content type: Research article Published on:

  46. Sweetpotato whitefly, Bemisia tabaci MED/Q and MEAM1/B, are two economically important invasive species that cause considerable damages to agriculture crops through direct feeding and indirect vectoring of plant ...

    Authors: Wen Xie, Xin Yang, Chunhai Chen, Zezhong Yang, Litao Guo, Dan Wang, Jinqun Huang, Hailin Zhang, Yanan Wen, Jinyang Zhao, Qingjun Wu, Shaoli Wang, Brad S. Coates, Xuguo Zhou and Youjun Zhang
    Citation: BMC Genomics 2018 19:68
    Content type: Research article Published on:

  47. Research to identify and characterize stem rust resistance genes in common wheat, Triticum aestivum, has been stimulated by the emergence of Ug99-lineage races of the wheat stem rust pathogen, Puccinia graminis f...

    Authors: Jason D. Zurn, Matthew N. Rouse, Shiaoman Chao, Meriem Aoun, Godwin Macharia, Colin W. Hiebert, Zacharias A. Pretorius, J. Michael Bonman and Maricelis Acevedo
    Citation: BMC Genomics 2018 19:67
    Content type: Research article Published on:

  48. Inferring phylogenetic trees for newly recovered genomes from metagenomic samples is very useful in determining the identities of uncultivated microorganisms. Even though 16S ribosomal RNA small subunit genes ...

    Authors: Yu-Wei Wu
    Citation: BMC Genomics 2018 19(Suppl 1):921
    Content type: Research Published on:

    This article is part of a Supplement: Volume 19 Supplement 1

  49. The 16th International Conference on Bioinformatics (InCoB) was held at Tsinghua University, Shenzhen from September 20 to 22, 2017. The annual conference of the Asia-Pacific Bioinformatics Network featured si...

    Authors: Christian Schönbach, Jinyan Li, Lan Ma, Paul Horton, Muhammad Farhan Sjaugi and Shoba Ranganathan
    Citation: BMC Genomics 2018 19(Suppl 1):920
    Content type: Introduction Published on:

    This article is part of a Supplement: Volume 19 Supplement 1

  50. Euplotes, a ciliated protozoan, is a useful unicellular model organism. Studies on Euplotes have provided excellent insights into various basic biological principles. We have recently sequenced the macronuclear g...

    Authors: Ruan-lin Wang, Wei Miao, Wei Wang, Jie Xiong and Ai-hua Liang
    Citation: BMC Genomics 2018 19:63
    Content type: Database Published on:

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BMC Genomics

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