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  1. Endogenous small interfering (esi)RNAs repress mRNA levels and retrotransposon mobility in Drosophila somatic cells by poorly understood mechanisms. 21 nucleotide esiRNAs are primarily generated from retrotran...

    Authors: Andrew W. Harrington, Michael R. McKain, Daniel Michalski, Kaylyn M. Bauer, Joshua M. Daugherty and Mindy Steiniger
    Citation: BMC Genomics 2017 18:304
    Content type: Research article Published on:

  2. The genetic basis of virulence in Mycobacterium tuberculosis has been investigated through genome comparisons of virulent (H37Rv) and attenuated (H37Ra) sister strains. Such analysis, however, relies heavily on t...

    Authors: Afif Elghraoui, Samuel J. Modlin and Faramarz Valafar
    Citation: BMC Genomics 2017 18:302
    Content type: Research Article Published on:

  3. Post-translational modification (PTM) of proteins is central to many cellular processes across all domains of life, but despite decades of study and a wealth of genomic and proteomic data the biological functi...

    Authors: Colin W. Brown, Viswanadham Sridhara, Daniel R. Boutz, Maria D. Person, Edward M. Marcotte, Jeffrey E. Barrick and Claus O. Wilke
    Citation: BMC Genomics 2017 18:301
    Content type: Research Article Published on:

  4. Trees experience mechanical stimuli -like wind- that trigger thigmomorphogenetic syndrome, leading to modifications of plant growth and wood quality. This syndrome affects tree productivity but is also believe...

    Authors: Lise Pomiès, Mélanie Decourteix, Jérôme Franchel, Bruno Moulia and Nathalie Leblanc-Fournier
    Citation: BMC Genomics 2017 18:300
    Content type: Research article Published on:

  5. Krüppel-like factor 9 (Klf9) is a zinc finger transcription factor that functions in neural cell differentiation, but little is known about its genomic targets or mechanism of action in neurons.

    Authors: Joseph R. Knoedler, Arasakumar Subramani and Robert J. Denver
    Citation: BMC Genomics 2017 18:299
    Content type: Research article Published on:

  6. Over the past 20 years, many marine seabird populations have been gradually declining and the factors driving this ongoing deterioration are not always well understood. Avipoxvirus infections have been found i...

    Authors: Subir Sarker, Shubhagata Das, Jennifer L. Lavers, Ian Hutton, Karla Helbig, Jacob Imbery, Chris Upton and Shane R. Raidal
    Citation: BMC Genomics 2017 18:298
    Content type: Research article Published on:

  7. DNA methylation, with a cryptic role in genome stability, gene transcription and expression, is involved in the drought response process in plants, but the complex regulatory mechanism is still largely unknown.

    Authors: Xuke Lu, Xiaoge Wang, Xiugui Chen, Na Shu, Junjuan Wang, Delong Wang, Shuai Wang, Weili Fan, Lixue Guo, Xiaoning Guo and Wuwei Ye
    Citation: BMC Genomics 2017 18:297
    Content type: Research article Published on:

  8. Metagenomics is the study of the microbial genomes isolated from communities found on our bodies or in our environment. By correctly determining the relation between human health and the human associated micro...

    Authors: William W. Greenwald, Niels Klitgord, Victor Seguritan, Shibu Yooseph, J. Craig Venter, Chad Garner, Karen E. Nelson and Weizhong Li
    Citation: BMC Genomics 2017 18:296
    Content type: Research article Published on:

  9. Modern fast-growing broilers are susceptible to heart failure under heat stress because their relatively small hearts cannot meet increased need of blood pumping. To improve the cardiac tolerance to heat stres...

    Authors: Jibin Zhang, Carl J Schmidt and Susan J Lamont
    Citation: BMC Genomics 2017 18:295
    Content type: Research Article Published on:

  10. The absence of Argonaute genes in the fungal pathogen Cryptococcus gattii R265 and other VGII strains indicates that yeasts of this genotype cannot have a functional RNAi pathway, an evolutionarily conserved gene...

    Authors: Patrícia Aline Gröhs Ferrareze, Rodrigo Silva Araujo Streit, Francine Melise dos Santos, Augusto Schrank, Livia Kmetzsch, Marilene Henning Vainstein and Charley Christian Staats
    Citation: BMC Genomics 2017 18:294
    Content type: Research Article Published on:

  11. Segmental duplications (SDs) commonly exist in plant and animal genomes, playing crucial roles in genomic rearrangement, gene innovation and the formation of copy number variants. However, they have received l...

    Authors: Xiaotian Feng, Jicai Jiang, Abinash Padhi, Chao Ning, Jinluan Fu, Aiguo Wang, Raphael Mrode and Jian-Feng Liu
    Citation: BMC Genomics 2017 18:293
    Content type: Research article Published on:

  12. Nucleotide binding site (NBS) genes encode a large family of disease resistance (R) proteins in plants. The availability of genomic data of the two diploid cotton species, Gossypium arboreum and Gossypium raimond...

    Authors: Liuxin Xiang, Jinggao Liu, Chaofeng Wu, Yushan Deng, Chaowei Cai, Xiao Zhang and Yingfan Cai
    Citation: BMC Genomics 2017 18:292
    Content type: Research article Published on:

  13. Two opposing evolutionary constraints exert pressure on plant pathogens: one to diversify virulence factors in order to evade plant defenses, and the other to retain virulence factors critical for maintaining ...

    Authors: William B. Rutter, Andres Salcedo, Alina Akhunova, Fei He, Shichen Wang, Hanquan Liang, Robert L. Bowden and Eduard Akhunov
    Citation: BMC Genomics 2017 18:291
    Content type: Research article Published on:

  14. Motility and the coordination of moving food through the gastrointestinal tract rely on a complex network of neurons known as the enteric nervous system (ENS). Despite its critical function, many of the molecu...

    Authors: Sweta Roy-Carson, Kevin Natukunda, Hsien-chao Chou, Narinder Pal, Caitlin Farris, Stephan Q. Schneider and Julie A. Kuhlman
    Citation: BMC Genomics 2017 18:290
    Content type: Research article Published on:

  15. Citrus breeding programs have many limitations associated with the species biology and physiology, requiring the incorporation of new biotechnological tools to provide new breeding possibilities. Diversity Arr...

    Authors: Maiara Curtolo, Mariângela Cristofani-Yaly, Rodrigo Gazaffi, Marco Aurélio Takita, Antonio Figueira and Marcos Antonio Machado
    Citation: BMC Genomics 2017 18:289
    Content type: Research article Published on:

  16. The accumulation of anthocyanin in horticultural crops not only improves their stress tolerances but also their nutritional values. Many key regulatory and structural genes in anthocyanin biosynthesis have bee...

    Authors: Lu Zhang, Bin Xu, Tao Wu, Yanfang Yang, Lianxue Fan, Muxuan Wen and Jiaxin Sui
    Citation: BMC Genomics 2017 18:288
    Content type: Research article Published on:

  17. Recently, much progress has been made in the field of gene-expression in early embryogenesis. However, the dynamic behaviour of transcriptomes in individual embryos has hardly been studied yet and the time poi...

    Authors: Han Rauwerda, Johanna F. B. Pagano, Wim C. de Leeuw, Wim Ensink, Ulrike Nehrdich, Mark de Jong, Martijs Jonker, Herman P. Spaink and Timo M. Breit
    Citation: BMC Genomics 2017 18:287
    Content type: Research Article Published on:

  18. Human endogenous retroviruses (HERVs) have received much attention for their implications in the etiology of many human diseases and their profound effect on evolution. Notably, recent studies have highlighted...

    Authors: Jérémie Becker, Philippe Pérot, Valérie Cheynet, Guy Oriol, Nathalie Mugnier, Marine Mommert, Olivier Tabone, Julien Textoris, Jean-Baptiste Veyrieras and François Mallet
    Citation: BMC Genomics 2017 18:286
    Content type: Methodology article Published on:

  19. Recent transcriptome analyses have shown that long non-coding RNAs (ncRNAs) play extensive roles in transcriptional regulation. In particular, we have reported that promoter-associated ncRNAs (pancRNAs) activa...

    Authors: Masahiro Uesaka, Kiyokazu Agata, Takao Oishi, Kinichi Nakashima and Takuya Imamura
    Citation: BMC Genomics 2017 18:285
    Content type: Research article Published on:

  20. Climatic and edaphic conditions over geological timescales have generated enormous diversity of adaptive traits and high speciation within the genus Eucalyptus (L. Hér.). Eucalypt species occur from high rainfall...

    Authors: Antanas V. Spokevicius, Josquin Tibbits, Philippe Rigault, Marc-Alexandre Nolin, Caroline Müller and Andrew Merchant
    Citation: BMC Genomics 2017 18:284
    Content type: Research article Published on:

  21. The tropical gar (Atractosteus tropicus) is the southernmost species of the seven extant species of gar fishes in the world. In Mexico and Central America, the species is an important food source due to its nutri...

    Authors: Kayla M. Cribbin, Corey R. Quackenbush, Kyle Taylor, Lenin Arias-Rodriguez and Joanna L. Kelley
    Citation: BMC Genomics 2017 18:283
    Content type: Research article Published on:

  22. Commensal bacteria like Neisseria meningitidis sometimes cause serious disease. However, genomic comparison of hyperinvasive and apathogenic lineages did not reveal unambiguous hints towards indispensable virulen...

    Authors: Biju Joseph Ampattu, Laura Hagmann, Chunguang Liang, Marcus Dittrich, Andreas Schlüter, Jochen Blom, Elizaveta Krol, Alexander Goesmann, Anke Becker, Thomas Dandekar, Tobias Müller and Christoph Schoen
    Citation: BMC Genomics 2017 18:282
    Content type: Research article Published on:

  24. Infertility in dairy cattle is a concern where reduced fertilization rates and high embryonic loss are contributing factors. Studies of the paternal contribution to reproductive performance are limited. Howeve...

    Authors: Jenna Kropp, José A. Carrillo, Hadjer Namous, Alyssa Daniels, Sana M. Salih, Jiuzhou Song and Hasan Khatib
    Citation: BMC Genomics 2017 18:280
    Content type: Research Article Published on:

  26. β-defensins are small, cationic, antimicrobial peptides found in species across the plant and animal kingdoms. In addition to microbiocidal activity, roles in immunity as well as reproduction have more recentl...

    Authors: T. J. Hall, C. McQuillan, E. K. Finlay, C. O’Farrelly, S. Fair and K. G. Meade
    Citation: BMC Genomics 2017 18:278
    Content type: Research article Published on:

  27. Gene expression data can be compromised by cells originating from other tissues than the target tissue of profiling. Failures in detecting such tissue heterogeneity have profound implications on data interpretati...

    Authors: Jitao David Zhang, Klas Hatje, Gregor Sturm, Clemens Broger, Martin Ebeling, Martine Burtin, Fabiola Terzi, Silvia Ines Pomposiello and Laura Badi
    Citation: BMC Genomics 2017 18:277
    Content type: Software Published on:

    The Correction to this article has been published in BMC Genomics 2018 19:558

  28. Cultivated spinach (Spinacia oleracea L.) is one of the most widely cultivated types of leafy vegetable in the world, and it has a high nutritional value. Spinach is also an ideal plant for investigating the mech...

    Authors: Wei Qian, Guiyan Fan, Dandan Liu, Helong Zhang, Xiaowu Wang, Jian Wu and Zhaosheng Xu
    Citation: BMC Genomics 2017 18:276
    Content type: Research article Published on:

  30. A fundamental concept in biology is that heritable material is passed from parents to offspring, a process called vertical gene transfer. An alternative mechanism of gene acquisition is through horizontal gene...

    Authors: Wenze Huang, Lillian Tsai, Yulong Li, Nan Hua, Chen Sun and Chaochun Wei
    Citation: BMC Genomics 2017 18:274
    Content type: Research article Published on:

  31. The economically important Ergot fungus Claviceps purpurea is an interesting biotrophic model system because of its strict organ specificity (grass ovaries) and the lack of any detectable plant defense reactions....

    Authors: Birgitt Oeser, Sabine Kind, Selma Schurack, Thomas Schmutzer, Paul Tudzynski and Janine Hinsch
    Citation: BMC Genomics 2017 18:273
    Content type: Research article Published on:

  32. Cephalosporins and penicillins are the most frequently used β-lactam antibiotics for the treatment of human infections worldwide. The main industrial producers of these antibiotics are Acremonium chrysogenum and

    Authors: Dominik Terfehr, Tim A. Dahlmann and Ulrich Kück
    Citation: BMC Genomics 2017 18:272
    Content type: Research article Published on:

  33. Atlantic cod (Gadus morhua), is known to vary genetically across the North Atlantic, Greenland, and Newfoundland. This genetic variation occurs both spatially and temporally through decades of heavy fishing, and ...

    Authors: Bryan T. Barney, Christiane Munkholm, David R. Walt and Stephen R. Palumbi
    Citation: BMC Genomics 2017 18:271
    Content type: Research article Published on:

  34. Epigenetic information can be used to identify clinically relevant genomic variants single nucleotide polymorphisms (SNPs) of functional importance in cancer development. Super-enhancers are cell-specific DNA ...

    Authors: Verena Zuber, Francesco Bettella, Aree Witoelar, Ole A. Andreassen, Ian G. Mills and Alfonso Urbanucci
    Citation: BMC Genomics 2017 18:270
    Content type: Research article Published on:

  36. Genome rearrangement describes gross changes of chromosomal regions, plays an important role in evolutionary biology and has profound impacts on phenotype in organisms ranging from microbes to humans. With mor...

    Authors: Dan Wang, Shuaicheng Li, Fei Guo, Kang Ning and Lusheng Wang
    Citation: BMC Genomics 2017 18:268
    Content type: Research Article Published on:

  37. Lactococcus lactis is among the most widely studied lactic acid bacterial species due to its long history of safe use and economic importance to the dairy industry, where it is exploit...

    Authors: Philip Kelleher, Francesca Bottacini, Jennifer Mahony, Kieran N. Kilcawley and Douwe van Sinderen
    Citation: BMC Genomics 2017 18:267
    Content type: Research article Published on:

  38. Sclerotinia sclerotiorum causes stem rot in Brassica napus, which leads to lodging and severe yield losses. Although recent studies have explored significant progress in the characteri...

    Authors: Shirin Seifbarghi, M. Hossein Borhan, Yangdou Wei, Cathy Coutu, Stephen J. Robinson and Dwayne D. Hegedus
    Citation: BMC Genomics 2017 18:266
    Content type: Research article Published on:

  39. Copy number variations (CNVs) are important and widely distributed in the genome. CNV detection opens a new avenue for exploring genes associated with complex traits in humans, animals and plants. Herein, we p...

    Authors: Yahui Gao, Jianping Jiang, Shaohua Yang, Yali Hou, George E Liu, Shengli Zhang, Qin Zhang and Dongxiao Sun
    Citation: BMC Genomics 2017 18:265
    Content type: Research article Published on:

  40. Type I interferons are major players against viral infections and mediate their function by the induction of Interferon regulated genes (IRGs). Recently, it became obvious that these cytokines have a multitude...

    Authors: Susanne Röll, Stefan Härtle, Thomas Lütteke, Bernd Kaspers and Sonja Härtle
    Citation: BMC Genomics 2017 18:264
    Content type: Research article Published on:

  43. Previous studies exploring sequence variation in the model legume, Medicago truncatula, relied on mapping short reads to a single reference. However, read-mapping approaches are inadequate to examine large, diver...

    Authors: Peng Zhou, Kevin A. T. Silverstein, Thiruvarangan Ramaraj, Joseph Guhlin, Roxanne Denny, Junqi Liu, Andrew D. Farmer, Kelly P. Steele, Robert M. Stupar, Jason R. Miller, Peter Tiffin, Joann Mudge and Nevin D. Young
    Citation: BMC Genomics 2017 18:261
    Content type: Research article Published on:

  44. Constitutive and alternative splicing of pre-mRNAs from multiexonic genes controls the diversity of the proteome; these precisely regulated processes also fine-tune responses to cues related to growth, develop...

    Authors: Sahar AlShareef, Yu Ling, Haroon Butt, Kiruthiga G. Mariappan, Moussa Benhamed and Magdy M. Mahfouz
    Citation: BMC Genomics 2017 18:260
    Content type: Research article Published on:

  45. Computational identification of non-coding RNAs (ncRNAs) is a challenging problem. We describe a genome-wide analysis using Bayesian segmentation to identify intronic elements highly conserved between three ev...

    Authors: Manjula Algama, Edward Tasker, Caitlin Williams, Adam C. Parslow, Robert J. Bryson-Richardson and Jonathan M. Keith
    Citation: BMC Genomics 2017 18:259
    Content type: Research article Published on:

  46. Metastasis via pelvic and/or para-aortic lymph nodes is a major risk factor for endometrial cancer. Lymph-node resection ameliorates risk but is associated with significant co-morbidities. Incidence in patient...

    Authors: Mehmet Eren Ahsen, Todd P. Boren, Nitin K. Singh, Burook Misganaw, David G. Mutch, Kathleen N. Moore, Floor J. Backes, Carolyn K. McCourt, Jayanthi S. Lea, David S. Miller, Michael A. White and Mathukumalli Vidyasagar
    Citation: BMC Genomics 2017 18(Suppl 3):233
    Content type: Research Published on:

    This article is part of a Supplement: Volume 18 Supplement 3

  47. Inferring the microbial interaction networks (MINs) and modeling their dynamics are critical in understanding the mechanisms of the bacterial ecosystem and designing antibiotic and/or probiotic therapies. Rece...

    Authors: Mustafa Alshawaqfeh, Erchin Serpedin and Ahmad Bani Younes
    Citation: BMC Genomics 2017 18(Suppl 3):228
    Content type: Research Published on:

    This article is part of a Supplement: Volume 18 Supplement 3

  48. The selective breeding of cattle with high-feed efficiencies (FE) is an important goal of beef and dairy cattle producers. Global gene expression patterns in relevant tissues can be used to study the functions...

    Authors: M. S. Salleh, G. Mazzoni, J. K. Höglund, D. W. Olijhoek, P. Lund, P. Løvendahl and H. N. Kadarmideen
    Citation: BMC Genomics 2017 18:258
    Content type: Research article Published on:

  49. Whole genome duplication (WGD) and tandem duplication (TD) provide two critical sources of raw genetic material for genome complexity and evolutionary novelty. Little is known about the complexity of the Sesamum ...

    Authors: Jingyin Yu, Linhai Wang, Hui Guo, Boshou Liao, Graham King and Xiurong Zhang
    Citation: BMC Genomics 2017 18:257
    Content type: Research article Published on:

  50. Authors: Vincent Doublet, Yvonne Poeschl, Andreas Gogol-Döring, Cédric Alaux, Desiderato Annoscia, Christian Aurori, Seth M. Barribeau, Oscar C. Bedoya-Reina, Mark J. F. Brown, James C. Bull, Michelle L. Flenniken, David A. Galbraith, Elke Genersch, Sebastian Gisder, Ivo Grosse, Holly L. Holt…
    Citation: BMC Genomics 2017 18:256
    Content type: Erratum Published on:

    The original article was published in BMC Genomics 2017 18:207

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BMC Genomics

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