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  1. Porcine reproductive and respiratory syndrome (PRRS) is one of the most economically important viral diseases affecting swine industry worldwide. Despite routine farm vaccination, effective control strategies ...

    Authors: Md Aminul Islam, Christine Große-Brinkhaus, Maren Julia Pröll, Muhammad Jasim Uddin, Sharmin Aqter Rony, Dawit Tesfaye, Ernst Tholen, Michael Hölker, Karl Schellander and Christiane Neuhoff
    Citation: BMC Genomics 2016 17:641
    Content type: Research article Published on:

  2. The selection of suitable internal control genes is crucial for proper interpretation of real-time PCR data. Here we outline a strategy to identify housekeeping genes that could serve as suitable internal cont...

    Authors: Tatiana M. Tilli, Cláudio da Silva Castro, Jack A. Tuszynski and Nicolas Carels
    Citation: BMC Genomics 2016 17:639
    Content type: Research article Published on:

  3. ChIP-seq provides a wealth of information on the approximate location of DNA-binding proteins genome-wide. It is known that the targeted motifs in most cases can be found at the peak centers. A high resolution...

    Authors: Gergely Nagy, Erik Czipa, László Steiner, Tibor Nagy, Sándor Pongor, László Nagy and Endre Barta
    Citation: BMC Genomics 2016 17:637
    Content type: Research article Published on:

  4. The AP2/ERF transcription factor is one of the most important gene families in plants, which plays the vital role in regulating plant growth and development as well as in response to diverse stresses. Although...

    Authors: Licao Cui, Kewei Feng, Mengxing Wang, Meng Wang, Pingchuan Deng, Weining Song and Xiaojun Nie
    Citation: BMC Genomics 2016 17:636
    Content type: Research article Published on:

  5. An estimated 15,000 children and adolescents under the age of 19 years are diagnosed with leukemia, lymphoma and other tumors in the USA every year. All children and adolescent acute leukemia patients will und...

    Authors: Seesandra V. Rajagopala, Shibu Yooseph, Derek M. Harkins, Kelvin J. Moncera, Keri B. Zabokrtsky, Manolito G. Torralba, Andrey Tovchigrechko, Sarah K. Highlander, Rembert Pieper, Leonard Sender and Karen E. Nelson
    Citation: BMC Genomics 2016 17:635
    Content type: Research article Published on:

  6. The bottlenose dolphin (Tursiops truncatus) is a mammal that belongs to the Cetartiodactyla and have lived in marine ecosystems for nearly 60 millions years. Despite its popularity, our knowledge about its adapti...

    Authors: Giovanna Linguiti, Rachele Antonacci, Gianluca Tasco, Francesco Grande, Rita Casadio, Serafina Massari, Vito Castelli, Arianna Consiglio, Marie-Paule Lefranc and Salvatrice Ciccarese
    Citation: BMC Genomics 2016 17:634
    Content type: Research article Published on:

    The Erratum to this article has been published in BMC Genomics 2016 17:778

  7. Aspergillus westerdijkiae produces ochratoxin A (OTA) in Aspergillus section Circumdati. It is responsible for the contamination of agricultural crops, fruits, and food commodities, as...

    Authors: Xiaolong Han, Alolika Chakrabortti, Jindong Zhu, Zhao-Xun Liang and Jinming Li
    Citation: BMC Genomics 2016 17:633
    Content type: Research article Published on:

  8. Chromatin immunoprecipitation followed by massively parallel DNA sequencing (ChIP-seq) or microarray hybridization (ChIP-chip) has been widely used to determine the genomic occupation of transcription factors ...

    Authors: Chia-Chun Yang, Erik H. Andrews, Min-Hsuan Chen, Wan-Yu Wang, Jeremy J. W. Chen, Mark Gerstein, Chun-Chi Liu and Chao Cheng
    Citation: BMC Genomics 2016 17:632
    Content type: Database Published on:

  9. Alternative splicing events that result in the production of multiple gene isoforms reveals important molecular mechanisms. Gene isoforms are often differentially expressed across organs and tissues, developme...

    Authors: In Seok Yang, Hyeonju Son, Sora Kim and Sangwoo Kim
    Citation: BMC Genomics 2016 17:631
    Content type: DATABASE Published on:

    The Erratum to this article has been published in BMC Genomics 2016 17:828

  11. Differential RNA-Seq (dRNA-Seq) is a recently developed method of performing primary transcriptome analyses that allows for the genome-wide mapping of transcriptional start sites (TSSs) and the identification ...

    Authors: Julia Babski, Karina A. Haas, Daniela Näther-Schindler, Friedhelm Pfeiffer, Konrad U. Förstner, Matthias Hammelmann, Rolf Hilker, Anke Becker, Cynthia M. Sharma, Anita Marchfelder and Jörg Soppa
    Citation: BMC Genomics 2016 17:629
    Content type: Research article Published on:

  12. The continuous and non-synchronous nature of postnatal male germ-cell development has impeded stage-specific resolution of molecular events of mammalian meiotic prophase in the testis. Here the juvenile onset ...

    Authors: Robyn L. Ball, Yasuhiro Fujiwara, Fengyun Sun, Jianjun Hu, Matthew A. Hibbs, Mary Ann Handel and Gregory W. Carter
    Citation: BMC Genomics 2016 17:628
    Content type: Research article Published on:

  13. Pedunculate oak (Quercus robur L.), an important forest tree in temperate ecosystems, displays an endogenous rhythmic growth pattern, characterized by alternating shoot and root growth flushes paralleled by oscil...

    Authors: Hazel R. Maboreke, Lasse Feldhahn, Markus Bönn, Mika T. Tarkka, Francois Buscot, Sylvie Herrmann, Ralph Menzel and Liliane Ruess
    Citation: BMC Genomics 2016 17:627
    Content type: Research article Published on:

  15. To increase the Zn level in shoots, AtHMA4 was ectopically expressed in tomato under the constitutive CaMV 35S promoter. However, the Zn concentration in the shoots of transgenic plants failed to increase at all ...

    Authors: Maria Kendziorek, Maria Klimecka, Anna Barabasz, Sören Borg, Justyna Rudzka, Paweł Szczęsny and Danuta Maria Antosiewicz
    Citation: BMC Genomics 2016 17:625
    Content type: Research article Published on:

  16. Plant genomes are populated by different types of repetitive elements including transposable elements (TEs) and simple sequence repeats (SSRs) that can have a strong impact on genome size and dynamic as well a...

    Authors: Ophélie Jouffroy, Surya Saha, Lukas Mueller, Hadi Quesneville and Florian Maumus
    Citation: BMC Genomics 2016 17:624
    Content type: Research article Published on:

  17. Leucine-rich repeat receptor-like kinases (LRR-RLKs) represent the largest subfamily of plant RLKs. The functions of most LRR-RLKs have remained undiscovered, and a few that have been experimentally characteri...

    Authors: Diogo M. Magalhães, Larissa L. S. Scholte, Nicholas V. Silva, Guilherme C. Oliveira, Cyril Zipfel, Marco A. Takita and Alessandra A. De Souza
    Citation: BMC Genomics 2016 17:623
    Content type: Research article Published on:

  19. The treatment of microbial infections is becoming increasingly challenging because of limited therapeutic options and the growing number of pathogenic strains that are resistant to current antibiotics. There i...

    Authors: Haoxin Li, Andrew Cowie, John A. Johnson, Duncan Webster, Christopher J. Martyniuk and Christopher A. Gray
    Citation: BMC Genomics 2016 17:621
    Content type: Research article Published on:

  20. Genome-wide surveys have detected cis-acting quantitative trait loci altering levels of RNA transcripts (RNA-eQTLs) by associating SNV alleles to transcript levels. However, the sensitivity and specificity of det...

    Authors: Seungeun Yeo, Colin A. Hodgkinson, Zhifeng Zhou, Jeesun Jung, Ming Leung, Qiaoping Yuan and David Goldman
    Citation: BMC Genomics 2016 17:620
    Content type: Research article Published on:

  21. Olfaction is a versatile sensory mechanism for detecting thousands of volatile odorants. Although molecular basis of odorant signaling is relatively well understood considerable gaps remain in the complete cha...

    Authors: Tsviya Olender, Ifat Keydar, Jayant M. Pinto, Pavlo Tatarskyy, Anna Alkelai, Ming-Shan Chien, Simon Fishilevich, Diego Restrepo, Hiroaki Matsunami, Yoav Gilad and Doron Lancet
    Citation: BMC Genomics 2016 17:619
    Content type: Research article Published on:

  22. B chromosomes are dispensable and variable karyotypic elements found in some species of animals, plants and fungi. They often originate from duplications and translocations of host genomic regions or result fr...

    Authors: Alexey I. Makunin, Ilya G. Kichigin, Denis M. Larkin, Patricia C. M. O’Brien, Malcolm A. Ferguson-Smith, Fengtang Yang, Anastasiya A. Proskuryakova, Nadezhda V. Vorobieva, Ekaterina N. Chernyaeva, Stephen J. O’Brien, Alexander S. Graphodatsky and Vladimir A. Trifonov
    Citation: BMC Genomics 2016 17:618
    Content type: Research article Published on:

  23. Transfer RNAs (tRNAs) are ubiquitous in all living organism. They implement the genetic code so that most genomes contain distinct tRNAs for almost all 61 codons. They behave similar to mobile elements and pro...

    Authors: Cristian A. Velandia-Huerto, Sarah J. Berkemer, Anne Hoffmann, Nancy Retzlaff, Liliana C. Romero Marroquín, Maribel Hernández-Rosales, Peter F. Stadler and Clara I. Bermúdez-Santana
    Citation: BMC Genomics 2016 17:617
    Content type: Research Article Published on:

  24. The white-rot fungus Phlebia sp. MG-60 shows valuable properties such as high ethanol yield from several lignocellulosic materials, although white-rot fungi commonly degrade woody components to CO2 and H2O. In or...

    Authors: Jianqiao Wang, Tomohiro Suzuki, Hideo Dohra, Shoko Takigami, Hiroko Kako, Ayumi Soga, Ichiro Kamei, Toshio Mori, Hirokazu Kawagishi and Hirofumi Hirai
    Citation: BMC Genomics 2016 17:616
    Content type: Research article Published on:

  25. Lasiodiplodia theobromae is a fungus of the Botryosphaeriaceae that causes grapevine vascular disease, especially in regions with hot climates. Fungi in this group often remain latent ...

    Authors: Marcos Paolinelli-Alfonso, José Manuel Villalobos-Escobedo, Philippe Rolshausen, Alfredo Herrera-Estrella, Clara Galindo-Sánchez, José Fabricio López-Hernández and Rufina Hernandez-Martinez
    Citation: BMC Genomics 2016 17:615
    Content type: Research article Published on:

  26. Long noncoding RNAs (lncRNAs) represent a class of RNA molecules that are implicated in regulation of gene expression in both mammals and plants. While much progress has been made in determining the biological...

    Authors: Stanford Kwenda, Paul R. J. Birch and Lucy N. Moleleki
    Citation: BMC Genomics 2016 17:614
    Content type: Research article Published on:

  27. Bean common mosaic virus (BCMV) is widespread, with Phaseolus species as the primary host plants. Numerous BCMV strains have been identified on the basis of a panel of bean varieties t...

    Authors: Kathleen Martin, Jugpreet Singh, John H. Hill, Steven A. Whitham and Steven B. Cannon
    Citation: BMC Genomics 2016 17:613
    Content type: Research article Published on:

  29. Color patterns in angiosperm flowers are produced by spatially and temporally restricted deposition of pigments. Identifying the mechanisms responsible for restricted pigment deposition is a topic of broad int...

    Authors: Kazuma Suzuki, Tomohiro Suzuki, Takashi Nakatsuka, Hideo Dohra, Masumi Yamagishi, Kohei Matsuyama and Hideyuki Matsuura
    Citation: BMC Genomics 2016 17:611
    Content type: Research article Published on:

  30. Populations of Atlantic salmon display highly significant genetic differences with unresolved molecular basis. These differences may result from separate postglacial colonization patterns, diversifying natural...

    Authors: Erik Kjærner-Semb, Fernando Ayllon, Tomasz Furmanek, Vidar Wennevik, Geir Dahle, Eero Niemelä, Mikhail Ozerov, Juha-Pekka Vähä, Kevin A. Glover, Carl J. Rubin, Anna Wargelius and Rolf B. Edvardsen
    Citation: BMC Genomics 2016 17:610
    Content type: Research article Published on:

  31. A large number of human inherited and acquired diseases and phenotypes are caused by mutations in G protein-coupled receptors (GPCR). Genome-wide association studies (GWAS) have shown that variations in the ADGRD...

    Authors: Liane Fischer, Caroline Wilde, Torsten Schöneberg and Ines Liebscher
    Citation: BMC Genomics 2016 17:609
    Content type: Research article Published on:

  32. Fusarium fujikuroi is the causal agent of bakanae, the most significant seed-borne disease of rice. Molecular mechanisms regulating defence responses of rice towards this fungus are no...

    Authors: Slavica Matić, Paolo Bagnaresi, Chiara Biselli, Luigi Orru’, Greice Amaral Carneiro, Ilenia Siciliano, Giampiero Valé, Maria Lodovica Gullino and Davide Spadaro
    Citation: BMC Genomics 2016 17:608
    Content type: Research article Published on:

  33. Phytophthora root and stem rot is one of the most yield-limiting diseases of soybean [Glycine max (L.) Merr], caused by the oomycete Phytophthora sojae. Partial resistance is controlled by several genes and, comp...

    Authors: Rhiannon Schneider, William Rolling, Qijian Song, Perry Cregan, Anne E. Dorrance and Leah K. McHale
    Citation: BMC Genomics 2016 17:607
    Content type: Research article Published on:

  34. Peanut zygotes typically divide a few times to form a pre-embryo before further embryonic development halts under normal day/night photoperiods. Ovary elongation, however, continuesforming a downward growing p...

    Authors: Ye Zhang, Pengfei Wang, Han Xia, Chuanzhi Zhao, Lei Hou, Changsheng Li, Chao Gao, Shuzhen Zhao and Xingjun Wang
    Citation: BMC Genomics 2016 17:606
    Content type: Research article Published on:

    The Erratum to this article has been published in BMC Genomics 2016 17:836

  35. Nuclear factor Y (NF-Y) transcription factor is composed of three distinct subunits: NF-YA, NF-YB and NF-YC. Many members of NF-Y family have been reported to be key regulators in plant development, phytohormo...

    Authors: Chong Ren, Zhan Zhang, Yi Wang, Shaohua Li and Zhenchang Liang
    Citation: BMC Genomics 2016 17:605
    Content type: Research article Published on:

  36. Genomic selection (GS) is a promising approach for decreasing breeding cycle length in forest trees. Assessment of progeny performance and of the prediction accuracy of GS models over generations is therefore ...

    Authors: Jérôme Bartholomé, Joost Van Heerwaarden, Fikret Isik, Christophe Boury, Marjorie Vidal, Christophe Plomion and Laurent Bouffier
    Citation: BMC Genomics 2016 17:604
    Content type: Research article Published on:

  37. The transition between pregnancy and lactation is a major physiological change for dairy cows. Complex systemic and local processes involving regulation of energy balance, galactopoiesis, utilisation of body r...

    Authors: Bruce Moran, Sean B. Cummins, Christopher J. Creevey and Stephen T. Butler
    Citation: BMC Genomics 2016 17:603
    Content type: Research article Published on:

  38. Postnatal development of the mammalian mucosal immune system is crucial for responding to the rapid colonization by commensal bacteria and possible exposure to pathogens. This study analyzed expression pattern...

    Authors: Guanxiang Liang, Nilusha Malmuthuge, Hua Bao, Paul Stothard, Philip J. Griebel and Le Luo Guan
    Citation: BMC Genomics 2016 17:602
    Content type: Research article Published on:

  39. High throughput protein expression studies can be performed using bead-based protein immunoassays, such as the Luminex® xMAP® technology. Technical variability is inherent to these experiments and may lead to ...

    Authors: Tanja K. Rausch, Arne Schillert, Andreas Ziegler, Angelika Lüking, Hans-Dieter Zucht and Peter Schulz-Knappe
    Citation: BMC Genomics 2016 17:601
    Content type: Research article Published on:

  41. Green mold caused by Penicillium digitatum is the most damaging postharvest diseases of citrus fruit. Previously, we have observed that citral dose-dependently inhibited the mycelial growth of P. digitatum, with ...

    Authors: Qiuli OuYang, Nengguo Tao and Guoxing Jing
    Citation: BMC Genomics 2016 17:599
    Content type: Research article Published on:

  42. High concentrations of atmospheric ammonia are one of the key environmental stressors affecting broiler production performance, which causes remarkable economic losses as well as potential welfare problems of ...

    Authors: Bao Yi, Liang Chen, Renna Sa, Ruqing Zhong, Huan Xing and Hongfu Zhang
    Citation: BMC Genomics 2016 17:598
    Content type: Research article Published on:

  43. Many species of bivalves exhibit a unique system of mtDNA transmission named Doubly Uniparental Inheritance (DUI). Under this system, species have two distinct, sex-linked mitochondrial genomes: the M-type mtD...

    Authors: Alyssa Mitchell, Davide Guerra, Donald Stewart and Sophie Breton
    Citation: BMC Genomics 2016 17:597
    Content type: Research article Published on:

  44. Feed efficient cattle consume less feed and produce less environmental waste than inefficient cattle. Many factors are known to contribute to differences in feed efficiency, however the underlying molecular me...

    Authors: Rebecca S. G. Kong, Guanxiang Liang, Yanhong Chen, Paul Stothard and Le Luo Guan
    Citation: BMC Genomics 2016 17:592
    Content type: Research article Published on:

  45. Only 2 % of the human genome code for proteins. Among the remaining 98 %, transposable elements (TEs) represent millions of sequences. TEs have an impact on genome evolution by promoting mutations. Especially,...

    Authors: Laura Grégoire, Annabelle Haudry and Emmanuelle Lerat
    Citation: BMC Genomics 2016 17:588
    Content type: Research article Published on:

  46. Ramularia collo-cygni is a newly important, foliar fungal pathogen of barley that causes the disease Ramularia leaf spot. The fungus exhibits a prolonged endophytic growth stage before...

    Authors: Graham R. D. McGrann, Ambrose Andongabo, Elisabet Sjökvist, Urmi Trivedi, Francois Dussart, Maciej Kaczmarek, Ashleigh Mackenzie, James M. Fountaine, Jeanette M. G. Taylor, Linda J. Paterson, Kalina Gorniak, Fiona Burnett, Kostya Kanyuka, Kim E. Hammond-Kosack, Jason J. Rudd, Mark Blaxter…
    Citation: BMC Genomics 2016 17:584
    Content type: Research article Published on:

  47. Bacillus cereus group isolates that produce diarrheal or emetic toxins are frequently isolated from raw milk and, in spore form, can survive pasteurization. Several species within the

    Authors: Jasna Kovac, Rachel A. Miller, Laura M. Carroll, David J. Kent, Jiahui Jian, Sarah M. Beno and Martin Wiedmann
    Citation: BMC Genomics 2016 17:581
    Content type: Research article Published on:

  48. Phylogenetic footprinting is an important computational technique for identifying cis-regulatory motifs in orthologous regulatory regions from multiple genomes, as motifs tend to evolve slower than their surround...

    Authors: Bingqiang Liu, Hanyuan Zhang, Chuan Zhou, Guojun Li, Anne Fennell, Guanghui Wang, Yu Kang, Qi Liu and Qin Ma
    Citation: BMC Genomics 2016 17:578
    Content type: Methodology article Published on:

  49. Although the toxicological impacts of the xenoestrogen bisphenol-A (BPA) have been studied extensively, but the mechanism of action is poorly understood. Eventually, no standard method exists for evaluating th...

    Authors: Md Saidur Rahman, Woo-Sung Kwon, Sung-Jae Yoon, Yoo-Jin Park, Buom-Yong Ryu and Myung-Geol Pang
    Citation: BMC Genomics 2016 17:577
    Content type: Research article Published on:

  50. The gastrointestinal tract is the primary site of toxin interaction, an interface between the organism and its surroundings. In this study, we assessed the alteration of intestinal mRNA profile in the case of ...

    Authors: Cornelia Braicu, Sonia Selicean, Roxana Cojocneanu-Petric, Raduly Lajos, Ovidiu Balacescu, Ionelia Taranu, Daniela Eliza Marin, Monica Motiu, Ancuta Jurj, Patriciu Achimas-Cadariu and Ioana Berindan-Neagoe
    Citation: BMC Genomics 2016 17:576
    Content type: Research article Published on:

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BMC Genomics

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