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  1. The important cereal crop Sorghum bicolor (L.) Moench biosynthesize and accumulate the defensive compound dhurrin during development. Previous work has suggested multiple roles for the compound including a functi...

    Authors: Lasse Janniche Nielsen, Peter Stuart, Martina Pičmanová, Simon Rasmussen, Carl Erik Olsen, Jesper Harholt, Birger Lindberg Møller and Nanna Bjarnholt
    Citation: BMC Genomics 2016 17:1021
    Content type: Research article Published on:

  2. How the pathogen Clostridium difficile might survive, evolve and be transferred between reservoirs within the natural environment is poorly understood. Some ribotypes are found both in clinical and environmental ...

    Authors: Katherine R. Hargreaves, Anisha M. Thanki, Bethany R. Jose, Marco R. Oggioni and Martha R. J. Clokie
    Citation: BMC Genomics 2016 17:1020
    Content type: Research article Published on:

  3. Authors: Robert Jackson, Bruce A. Rosa, Sonia Lameiras, Sean Cuninghame, Josee Bernard, Wely B. Floriano, Paul F. Lambert, Alain Nicolas and Ingeborg Zehbe
    Citation: BMC Genomics 2016 17:1018
    Content type: Erratum Published on:

    The original article was published in BMC Genomics 2016 17:851

  4. Low-abundance mutations in mitochondrial populations (mutations with minor allele frequency ≤ 1%), are associated with cancer, aging, and neurodegenerative disorders. While recent progress in high-throughput s...

    Authors: Levent Albayrak, Kamil Khanipov, Maria Pimenova, George Golovko, Mark Rojas, Ioannis Pavlidis, Sergei Chumakov, Gerardo Aguilar, Arturo Chávez, William R. Widger and Yuriy Fofanov
    Citation: BMC Genomics 2016 17:1017
    Content type: Research article Published on:

  5. Whereas an increasing number of pathogenic and mutualistic ascomycetous species were sequenced in the past decade, species showing a seemingly neutral association such as root endophytes received less attentio...

    Authors: Markus Schlegel, Martin Münsterkötter, Ulrich Güldener, Rémy Bruggmann, Angelo Duò, Matthieu Hainaut, Bernard Henrissat, Christian M. K. Sieber, Dirk Hoffmeister and Christoph R. Grünig
    Citation: BMC Genomics 2016 17:1015
    Content type: Research article Published on:

  6. The Fusarium graminearum species complex is composed of many distinct fungal species that cause several diseases in economically important crops, including Fusarium Head Blight of wheat. Despite being closely rel...

    Authors: Sean Walkowiak, Owen Rowland, Nicolas Rodrigue and Rajagopal Subramaniam
    Citation: BMC Genomics 2016 17:1014
    Content type: Research article Published on:

  7. The African wild dog (Lycaon pictus) is an endangered African canid threatened by severe habitat fragmentation, human-wildlife conflict, and infectious disease. A highly specialized carnivore, it is distinguished...

    Authors: Michael G. Campana, Lillian D. Parker, Melissa T. R. Hawkins, Hillary S. Young, Kristofer M. Helgen, Micaela Szykman Gunther, Rosie Woodroffe, Jesús E. Maldonado and Robert C. Fleischer
    Citation: BMC Genomics 2016 17:1013
    Content type: Research article Published on:

  9. Clock genes are considered to be the molecular core of biological clock in vertebrates and they are directly involved in the regulation of daily rhythms in vertebrate tissues such as skeletal muscles. Fish myo...

    Authors: Ping Wu, Yu-Long Li, Jia Cheng, Lin Chen, Xin Zhu, Zhi-Guo Feng, Jian-She Zhang and Wu-Ying Chu
    Citation: BMC Genomics 2016 17:1008
    Content type: Research article Published on:

  10. Propionibacterium freudenreichii is an Actinobacterium widely used in the dairy industry as a ripening culture for Swiss-type cheeses, for vitamin B12 production and some strains displ...

    Authors: Flavia Figueira Aburjaile, Marine Rohmer, Hugues Parrinello, Marie-Bernadette Maillard, Eric Beaucher, Gwénaële Henry, Aurélie Nicolas, Marie-Noëlle Madec, Anne Thierry, Sandrine Parayre, Stéphanie-Marie Deutsch, Muriel Cocaign-Bousquet, Anderson Miyoshi, Vasco Azevedo, Yves Le Loir and Hélène Falentin
    Citation: BMC Genomics 2016 17:1007
    Content type: Research article Published on:

  11. The switch from photosynthetic or predatory to parasitic life strategies by apicomplexans is accompanied with a reductive evolution of genomes and losses of metabolic capabilities. Cryptosporidium is an extreme e...

    Authors: Shiyou Liu, Dawn M. Roellig, Yaqiong Guo, Na Li, Michael A. Frace, Kevin Tang, Longxian Zhang, Yaoyu Feng and Lihua Xiao
    Citation: BMC Genomics 2016 17:1006
    Content type: Research article Published on:

  12. The evolutionary arms race between plants and insects has driven the co-evolution of sophisticated defense mechanisms used by plants to deter herbivores and equally sophisticated strategies that enable phytoph...

    Authors: Cristina M. Crava, Christoph Brütting and Ian T. Baldwin
    Citation: BMC Genomics 2016 17:1005
    Content type: Research article Published on:

  13. Metabolic stress associated with negative energy balance in high producing dairy cattle and obesity in women is a risk factor for decreased fertility. Non-esterified fatty acids (NEFA) are involved in this pat...

    Authors: K. L. J Desmet, V. Van Hoeck, D. Gagné, E. Fournier, A. Thakur, A. M. O’Doherty, C. P. Walsh, M. A. Sirard, P. E. J. Bols and J. L. M. R. Leroy
    Citation: BMC Genomics 2016 17:1004
    Content type: Research article Published on:

  15. Initial characterization of the flax genome showed that Ty1-copia retrotransposons are abundant, with several members being recently inserted, and in close association with genes. Recent insertions indicate a pot...

    Authors: Leonardo Galindo-González, Corinne Mhiri, Marie-Angèle Grandbastien and Michael K. Deyholos
    Citation: BMC Genomics 2016 17:1002
    Content type: Research article Published on:

  16. The African buffalo (Syncerus caffer) is an important role player in the savannah ecosystem. It has become a species of relevance because of its role as a wildlife maintenance host for an array of infectious and ...

    Authors: Brigitte Glanzmann, Marlo Möller, Nikki le Roex, Gerard Tromp, Eileen G. Hoal and Paul D. van Helden
    Citation: BMC Genomics 2016 17:1001
    Content type: Research article Published on:

  17. Pectin methylesterase (PME, EC 3.1.1.11) is a hydrolytic enzyme that utilizes pectin as substrates, and plays a significant role in regulating pectin reconstruction thereby regulating plant growth. Pectin is o...

    Authors: Weijie Li, Haihong Shang, Qun Ge, Changsong Zou, Juan Cai, Daojie Wang, Senmiao Fan, Zhen Zhang, Xiaoying Deng, Yunna Tan, Weiwu Song, Pengtao Li, Palanga Kibalou Koffi, Muhammad Jamshed, Quanwei Lu, Wankui Gong…
    Citation: BMC Genomics 2016 17:1000
    Content type: Research article Published on:

  18. Pistachio (Pistacia vera L.) is one of the most important nut crops in the world. There are about 11 wild species in the genus Pistacia, and they have importance as rootstock seed sources for cultivated P. vera a...

    Authors: Elmira Ziya Motalebipour, Salih Kafkas, Mortaza Khodaeiaminjan, Nergiz Çoban and Hatice Gözel
    Citation: BMC Genomics 2016 17:998
    Content type: Regular article Published on:

  19. Satellite DNA (satDNA) sequences are typically arranged as arrays of tandemly repeated monomers. Due to the similarity among monomers, their organizational pattern and abundance, satDNAs are hardly accessible ...

    Authors: Eva Satović, Tanja Vojvoda Zeljko, Andrea Luchetti, Barbara Mantovani and Miroslav Plohl
    Citation: BMC Genomics 2016 17:997
    Content type: Research article Published on:

  20. Diatoms are able to acclimate to frequent and large light fluctuations in the surface ocean waters. However, the molecular mechanisms underlying these acclimation responses of diaotms remain elusive.

    Authors: Hong-Po Dong, Yue-Lei Dong, Lei Cui, Srinivasan Balamurugan, Jian Gao, Song-Hui Lu and Tao Jiang
    Citation: BMC Genomics 2016 17:994
    Content type: Research article Published on:

  21. Rhodococcus equi (R. equi) is an intracellular bacterium that affects young foals and immuno-compromised individuals causing severe pneumonia. Currently, the genetic mechanisms that co...

    Authors: Cole M. McQueen, Canaan M. Whitfield-Cargile, Kranti Konganti, Glenn P. Blodgett, Scott V. Dindot and Noah D. Cohen
    Citation: BMC Genomics 2016 17:993
    Content type: Research article Published on:

  22. In the process of retrotransposition LINEs use their own machinery for copying and inserting themselves into new genomic locations, while SINEs are parasitic and require the machinery of LINEs. The exact mecha...

    Authors: Daria Grechishnikova and Maria Poptsova
    Citation: BMC Genomics 2016 17:992
    Content type: Research article Published on:

  23. In the estimation of repeat numbers in a short tandem repeat (STR) region from high-throughput sequencing data, two types of strategies are mainly taken: a strategy based on counting repeat patterns included i...

    Authors: Kaname Kojima, Yosuke Kawai, Kazuharu Misawa, Takahiro Mimori and Masao Nagasaki
    Citation: BMC Genomics 2016 17:991
    Content type: Research Article Published on:

  24. Whole genome sequencing (WGS) is useful for determining clusters of human cases, investigating outbreaks, and defining the population genetics of bacteria. It also provides information about other aspects of b...

    Authors: Clifford G. Clark, Chrystal Berry, Matthew Walker, Aaron Petkau, Dillon O. R. Barker, Cai Guan, Aleisha Reimer and Eduardo N. Taboada
    Citation: BMC Genomics 2016 17:990
    Content type: Research article Published on:

  26. Polymicrobial infections represent a great challenge for the clarification of disease etiology and the development of comprehensive diagnostic or therapeutic tools, particularly for fastidious and difficult-to...

    Authors: Paolo Marcatili, Martin W. Nielsen, Thomas Sicheritz-Pontén, Tim K. Jensen, Claus Schafer-Nielsen, Mette Boye, Morten Nielsen and Kirstine Klitgaard
    Citation: BMC Genomics 2016 17:987
    Content type: Research article Published on:

  27. Entomopathogenic fungi such as Beauveria bassiana are promising biological agents for control of malaria mosquitoes. Indeed, infection with B. bassiana reduces the lifespan of mosquitoes in the laboratory and in ...

    Authors: Claudio A. Valero-Jiménez, Luigi Faino, Daphne Spring in’t Veld, Sandra Smit, Bas J. Zwaan and Jan A. L. van Kan
    Citation: BMC Genomics 2016 17:986
    Content type: Research article Published on:

  28. Sexual dimorphism occurs widely across the animal kingdom and has profound effects on evolutionary trajectories. Here, we investigate sex-specific gene expression in Ischnura elegans (Odonata: dragonflies and dam...

    Authors: Pallavi Chauhan, Maren Wellenreuther and Bengt Hansson
    Citation: BMC Genomics 2016 17:985
    Content type: Research article Published on:

  29. Oenococcus oeni is the bacterial species that drives malolactic fermentation in most wines. Several studies have described a high intraspecific diversity regarding carbohydrate degrada...

    Authors: Alice Cibrario, Claire Peanne, Marine Lailheugue, Hugo Campbell-Sills and Marguerite Dols-Lafargue
    Citation: BMC Genomics 2016 17:984
    Content type: Research article Published on:

  30. The COP9 signalosome, composed of eight subunits, is implicated in cancer genetics with its deneddylase activity to modulate cellular concentration of oncogenic proteins such as IkB and TGFβ. However, its func...

    Authors: Christina A. Wicker and Tadahide Izumi
    Citation: BMC Genomics 2016 17:983
    Content type: Research article Published on:

  31. Mannheimia haemolytica typically resides in cattle as a commensal member of the upper respiratory tract microbiome. However, some strains can invade their lungs and cause respiratory d...

    Authors: Michael L. Clawson, Robert W. Murray, Michael T. Sweeney, Michael D. Apley, Keith D. DeDonder, Sarah F. Capik, Robert L. Larson, Brian V. Lubbers, Brad J. White, Theodore S. Kalbfleisch, Gennie Schuller, Aaron M. Dickey, Gregory P. Harhay, Michael P. Heaton, Carol G. Chitko-McKown, Dayna M. Brichta-Harhay…
    Citation: BMC Genomics 2016 17:982
    Content type: Research article Published on:

  34. Although CRISPR/Cas enables one-step gene cassette knock-in, assembling targeting vectors containing long homology arms is a laborious process for high-throughput knock-in. We recently developed the CRISPR/Cas...

    Authors: Tomomi Aida, Shota Nakade, Tetsushi Sakuma, Yayoi Izu, Ayu Oishi, Keiji Mochida, Harumi Ishikubo, Takako Usami, Hidenori Aizawa, Takashi Yamamoto and Kohichi Tanaka
    Citation: BMC Genomics 2016 17:979
    Content type: Methodology article Published on:

  35. The expression of sexually selected traits often varies with populations’ breeding cycles in many animals. The elucidation of mechanisms underlying the expression of such traits is a research topic in evolutio...

    Authors: Wei Zhang, Yue Guo, Jun Li, Li Huang, Eric Gilbert Kazitsa and Hua Wu
    Citation: BMC Genomics 2016 17:978
    Content type: Research article Published on:

  36. The unambiguous identification of individual chromosomes is a key part of the genomic characterization of any species. In this respect, the development and application of chromosome banding techniques has revo...

    Authors: Helal A. Ansari, Nicholas W. Ellison, Shalome A. Bassett, Syed W. Hussain, Gregory T. Bryan and Warren M. Williams
    Citation: BMC Genomics 2016 17:977
    Content type: Research article Published on:

  37. Children exposed to maternal smoking during pregnancy exhibit increased risk for many adverse health effects. Maternal smoking influences methylation in newborns at specific CpG sites (CpGs). Here, we extend e...

    Authors: Daniel M. Rotroff, Bonnie R. Joubert, Skylar W. Marvel, Siri E. Håberg, Michael C. Wu, Roy M. Nilsen, Per M. Ueland, Wenche Nystad, Stephanie J. London and Alison Motsinger-Reif
    Citation: BMC Genomics 2016 17:976
    Content type: Research article Published on:

  38. Resident microorganisms (microbiota) have far-reaching effects on the biology of their animal hosts, with major consequences for the host’s health and fitness. A full understanding of microbiota-dependent gene...

    Authors: Adam J. Dobson, John M. Chaston and Angela E. Douglas
    Citation: BMC Genomics 2016 17:975
    Content type: Research article Published on:

    The Erratum to this article has been published in BMC Genomics 2017 18:124

  39. Visfatin is an adipokine associated with glucose and lipid metabolism. We previously reported two visfatin upstream single nucleotide polymorphisms (SNPs), c.-3187G > A (rs11977021) and c.-1537C > T (rs6133008...

    Authors: Delicia Shu Qin Ooi, Siong Gim Ong, Chew Kiat Heng, Kah Yin Loke and Yung Seng Lee
    Citation: BMC Genomics 2016 17:974
    Content type: Research article Published on:

  40. The general structure and action of all eukaryotic and archaeal RNA polymerases machinery have an astonishing similarity despite the diversity of core promoter sequences in different species. The goal of our w...

    Authors: Irina A. Il’icheva, Mingian V. Khodikov, Maria S. Poptsova, Dmitry Yu. Nechipurenko, Yury D. Nechipurenko and Sergei L. Grokhovsky
    Citation: BMC Genomics 2016 17:973
    Content type: Research article Published on:

  41. Fatty acid type in beef can be detrimental to human health and has received considerable attention in recent years. The aim of this study was to identify differentially expressed genes in longissimus thoracis mus...

    Authors: Mariana P. Berton, Larissa F. S. Fonseca, Daniela F. J. Gimenez, Bruno L. Utembergue, Aline S. M. Cesar, Luiz L. Coutinho, Marcos Vinicius A. de Lemos, Carolyn Aboujaoude, Angélica S. C. Pereira, Rafael M. de O Silva, Nedenia B. Stafuzza, Fabieli L. B. Feitosa, Hermenegildo L. J. Chiaia, Bianca F. Olivieri, Elisa Peripolli, Rafael L. Tonussi…
    Citation: BMC Genomics 2016 17:972
    Content type: Research article Published on:

  42. For their transmission, African trypanosomes rely on their blood feeding insect vector, the tsetse fly (Glossina sp.). The ingested Trypanosoma brucei parasites have to overcome a series of barriers in the tsetse...

    Authors: Irina Matetovici, Guy Caljon and Jan Van Den Abbeele
    Citation: BMC Genomics 2016 17:971
    Content type: Research Article Published on:

  43. In their natural environment, bacteria face a wide range of environmental conditions that change over time and that impose continuous rearrangements at all the cellular levels (e.g. gene expression, metabolism...

    Authors: Marco Fondi, Emanuele Bosi, Luana Presta, Diletta Natoli and Renato Fani
    Citation: BMC Genomics 2016 17:970
    Content type: Research article Published on:

  44. Small nucleolar RNAs (snoRNAs) are one of the most ancient families amongst non-protein-coding RNAs. They are ubiquitous in Archaea and Eukarya but absent in bacteria. Their main function is to target chemical...

    Authors: Deblina Patra Bhattacharya, Sebastian Canzler, Stephanie Kehr, Jana Hertel, Ivo Grosse and Peter F. Stadler
    Citation: BMC Genomics 2016 17:969
    Content type: Research Article Published on:

  45. Conception is a fundamental trait for successful cattle reproduction. However, conception rates in Japanese Black cattle have been gradually declining over the last two decades. Although conception failures ar...

    Authors: Shinji Sasaki, Takayuki Ibi, Takayuki Akiyama, Moriyuki Fukushima and Yoshikazu Sugimoto
    Citation: BMC Genomics 2016 17:968
    Content type: Research article Published on:

  46. The Xklp2 (TPX2) proteins belong to the microtubule-associated (MAP) family of proteins. All members of the family contain the conserved TPX2 motif, which can interact with microtubules, regulate microtubule d...

    Authors: Pingzhou Du, Manoj Kumar, Yuan Yao, Qiaoli Xie, Jinyan Wang, Baolong Zhang, Siming Gan, Yuqi Wang and Ai-Min Wu
    Citation: BMC Genomics 2016 17:967
    Content type: Research article Published on:

  47. Recently, measurement of RNA at single cell resolution has yielded surprising insights. Methods for single-cell RNA sequencing (scRNA-seq) have received considerable attention, but the broad reliability of sin...

    Authors: Hannah R. Dueck, Rizi Ai, Adrian Camarena, Bo Ding, Reymundo Dominguez, Oleg V. Evgrafov, Jian-Bing Fan, Stephen A. Fisher, Jennifer S. Herstein, Tae Kyung Kim, Jae Mun (Hugo) Kim, Ming-Yi Lin, Rui Liu, William J. Mack, Sean McGroty, Joseph D. Nguyen…
    Citation: BMC Genomics 2016 17:966
    Content type: Research article Published on:

  48. Tandem duplication followed by random loss (TDRL) is the most frequently invoked model to explain the diversity of gene rearrangements in metazoan mitogenomes. The initial stages of gene rearrangement are diff...

    Authors: Yun Xia, Yuchi Zheng, Robert W. Murphy and Xiaomao Zeng
    Citation: BMC Genomics 2016 17:965
    Content type: Research article Published on:

  49. Mycoplasma hominis is an opportunistic human pathogen, associated with clinically diverse disease. Currently, there is no standardised method for typing M. hominis, which would aid in ...

    Authors: Aleksey Jironkin, Rebecca J. Brown, Anthony Underwood, Victoria J. Chalker and Owen B. Spiller
    Citation: BMC Genomics 2016 17:964
    Content type: Research article Published on:

  50. Avian pathogenic Escherichia coli (APEC) causes colibacillosis, which results in significant economic losses to the poultry industry worldwide. However, the diversity between isolates remains poorly understood. H...

    Authors: Guido Cordoni, Martin J. Woodward, Huihai Wu, Mishaal Alanazi, Tim Wallis and Roberto M. La Ragione
    Citation: BMC Genomics 2016 17:960
    Content type: Research article Published on:

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BMC Genomics

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