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  1. Witches’ broom disease (WBD) caused by the fungus Moniliophthora perniciosa is responsible for considerable economic losses for cacao producers. One of the ways to combat WBD is to plant resistant cultivars. Resi...

    Authors: Stefan Royaert, Johannes Jansen, Daniela Viana da Silva, Samuel Martins de Jesus Branco, Donald S. Livingstone III, Guiliana Mustiga, Jean-Philippe Marelli, Ioná Santos Araújo, Ronan Xavier Corrêa and Juan Carlos Motamayor
    Citation: BMC Genomics 2016 17:107
    Content type: Research article Published on:

  2. A high caloric diet, in conjunction with low levels of physical activity, promotes obesity. Many studies are available regarding the relation between dietary saturated fats and the etiology of obesity, but mos...

    Authors: Tenzin Nyima, Michael Müller, Guido J. E. J. Hooiveld, Melissa J. Morine and Marco Scotti
    Citation: BMC Genomics 2016 17:106
    Content type: Research article Published on:

  3. Trypanosomatid genomes are highly colonized by non-LTR retroelements that make up to 5 % of the nuclear genome. These elements are mainly accumulated in the strand switch regions (SSRs) where polycistronic tra...

    Authors: Francisco Macías, Manuel Carlos López and M. Carmen Thomas
    Citation: BMC Genomics 2016 17:105
    Content type: Research article Published on:

  4. Nutritional strategies can decrease saturated fatty acids (SFAs) and increase health beneficial fatty acids (FAs) in bovine milk. The pathways/genes involved in these processes are not properly defined. Next-g...

    Authors: Eveline M. Ibeagha-Awemu, Ran Li, Adolf A. Ammah, Pier-Luc Dudemaine, Nathalie Bissonnette, Chaouki Benchaar and Xin Zhao
    Citation: BMC Genomics 2016 17:104
    Content type: Research article Published on:

  5. Chronological aging-associated changes in the human DNA methylome have been studied by multiple epigenome-wide association studies (EWASs). Certain CpG sites have been identified as aging-associated in multipl...

    Authors: L. Kananen, S. Marttila, T. Nevalainen, J. Jylhävä, N. Mononen, M. Kähönen, O. T. Raitakari, T. Lehtimäki and M. Hurme
    Citation: BMC Genomics 2016 17:103
    Content type: Research article Published on:

  6. The purpose of this project was to identify metabolites, proteins, genes, and promoters associated with water stress responses in soybean. A number of these may serve as new targets for the biotechnological im...

    Authors: Prateek Tripathi, Roel C. Rabara, R. Neil Reese, Marissa A. Miller, Jai S. Rohila, Senthil Subramanian, Qingxi J. Shen, Dominique Morandi, Heike Bücking, Vladimir Shulaev and Paul J. Rushton
    Citation: BMC Genomics 2016 17:102
    Content type: Research article Published on:

  8. Due to an abundance of repetitive DNA, the annotation of heterochromatic regions of the genome such as the Y chromosome is problematic. The Y chromosome is involved in key biological functions such as male-fer...

    Authors: Leonardo B Koerich, Eduardo G Dupim, Leonardo L Faria, Felipe A Dias, Ana F Dias, Gabriela S Trindade, Rafael D Mesquita and Antonio B Carvalho
    Citation: BMC Genomics 2016 17:100
    Content type: Research article Published on:

  9. An ancestral trait of eukaryotic cells is the presence of mitochondria as an essential element for function and survival. Proper functioning of mitochondria depends on the import of nearly all proteins that is...

    Authors: Dorota Buczek, Małgorzata Wojtkowska, Yutaka Suzuki, Seiji Sonobe, Yukinori Nishigami, Monika Antoniewicz, Hanna Kmita and Wojciech Makałowski
    Citation: BMC Genomics 2016 17:99
    Content type: Research article Published on:

  11. Wheat embryo and endosperm play important roles in seed germination, seedling survival, and subsequent vegetative growth. ABA can positively regulate dormancy induction and negatively regulates seed germinatio...

    Authors: Yonglong Yu, Shoumin Zhen, Shu Wang, Yaping Wang, Hui Cao, Yanzhen Zhang, Jiarui Li and Yueming Yan
    Citation: BMC Genomics 2016 17:97
    Content type: Research article Published on:

  12. Histone deacetylases (HDACs) are key enzymes catalyzing the removal of acetyl groups from histones. HDACs act in concert with histone acetyltransferases (HATs) to regulate histone acetylation status, which mod...

    Authors: Xujun Ma, Chao Zhang, Bing Zhang, Chuanping Yang and Shujuan Li
    Citation: BMC Genomics 2016 17:96
    Content type: Research article Published on:

  13. Pluripotent cells can be differentiated into many different cell types in vitro. Successful differentiation is guided in large part by epigenetic reprogramming and regulation of critical gene expression patter...

    Authors: Michelle Gonzales-Cope, Simone Sidoli, Natarajan V. Bhanu, Kyoung-Jae Won and Benjamin A. Garcia
    Citation: BMC Genomics 2016 17:95
    Content type: Research article Published on:

  14. A betabaculovirus (DisaGV) was isolated from Diatraea saccharalis (Lepidoptera: Crambidae), one of the most important insect pests of the sugarcane and other monocot cultures in Brazil.

    Authors: Daniel M P. Ardisson-Araújo, Bruna T. Pereira, Fernando L. Melo, Bergmann M. Ribeiro, Sônia N. Báo, Paolo M. de A. Zanotto, Flávio Moscardi, Elliot W. Kitajima, Daniel R. Sosa-Gomez and José L. C. Wolff
    Citation: BMC Genomics 2016 17:94
    Content type: Research article Published on:

  15. Sphingomonads are Alphaproteobacteria that belong to the Sphingomonas, Novosphingobium, Sphingopyxis or Sphingobium genera, They are physiologically diverse and broadly distributed in nature, playing important ro...

    Authors: Inmaculada García-Romero, Antonio J. Pérez-Pulido, Yolanda Elisabet González-Flores, Francisca Reyes-Ramírez, Eduardo Santero and Belén Floriano
    Citation: BMC Genomics 2016 17:93
    Content type: Research article Published on:

  16. Dynamic transcriptional regulation is critical for an organism’s response to environmental signals and yet remains elusive to capture. Such transcriptional regulation is mediated by master transcription factor...

    Authors: Joan Doidy, Ying Li, Benjamin Neymotin, Molly B. Edwards, Kranthi Varala, David Gresham and Gloria M. Coruzzi
    Citation: BMC Genomics 2016 17:92
    Content type: Research article Published on:

  17. Ochroconis mirabilis, a recently introduced water-borne dematiaceous fungus, is occasionally isolated from human skin lesions and nails. We identified an isolate of O. mirabilis from a...

    Authors: Su Mei Yew, Chai Ling Chan, Chee Sian Kuan, Yue Fen Toh, Yun Fong Ngeow, Shiang Ling Na, Kok Wei Lee, Chee-Choong Hoh, Wai-Yan Yee and Kee Peng Ng
    Citation: BMC Genomics 2016 17:91
    Content type: Research article Published on:

  18. The increased availability of genome sequences has advanced the development of genomic distance methods to describe bacterial diversity. Results of these fast-evolving methods are highly correlated with those ...

    Authors: Philippe Prior, Florent Ailloud, Beth L. Dalsing, Benoit Remenant, Borja Sanchez and Caitilyn Allen
    Citation: BMC Genomics 2016 17:90
    Content type: Research article Published on:

  19. The liver plays important roles in nutrient metabolism, detoxification and immunity. Enterococcus faecium (E. faecium) is a probiotic that has been shown to have positive effects on broiler production. However, i...

    Authors: Aijuan Zheng, Jianjie Luo, Kun Meng, Jianke Li, Wayne L. Bryden, Wenhuan Chang, Shu Zhang, L. X. N. Wang, Guohua Liu and Bin Yao
    Citation: BMC Genomics 2016 17:89
    Content type: Research article Published on:

  20. Sugarcane is an economically important crop contributing to about 80 % of the world sugar production. Increasing efforts in molecular biological studies have been performed for improving the sugar yield and ot...

    Authors: Qing Zhang, Weichang Hu, Fan Zhu, Liming Wang, Qingyi Yu, Ray Ming and Jisen Zhang
    Citation: BMC Genomics 2016 17:88
    Content type: Research article Published on:

  21. The genomes of plant viruses have limited coding capacity, and to complete their infectious cycles, viral factors must target, direct or indirectly, many host elements. However, the interaction networks betwee...

    Authors: Fernando Martínez, Guillermo Rodrigo, Verónica Aragonés, Marta Ruiz, Iris Lodewijk, Unai Fernández, Santiago F. Elena and José-Antonio Daròs
    Citation: BMC Genomics 2016 17:87
    Content type: Research article Published on:

  22. Functional metagenomics is a promising strategy for the exploration of the biocatalytic potential of microbiomes in order to uncover novel enzymes for industrial processes (e.g. biorefining or bleaching pulp)....

    Authors: Mukil Maruthamuthu, Diego Javier Jiménez, Patricia Stevens and Jan Dirk van Elsas
    Citation: BMC Genomics 2016 17:86
    Content type: Research article Published on:

  23. Small RNAs (sRNAs) are endogenous sRNAs that play regulatory roles in plant growth, development, and biotic and abiotic stress responses. In plants, one subset of sRNAs, microRNAs (miRNAs) exhibit tissue-diffe...

    Authors: Behnam Khatabi, Siwaret Arikit, Rui Xia, Stephan Winter, Doungous Oumar, Kone Mongomake, Blake C. Meyers and Vincent N. Fondong
    Citation: BMC Genomics 2016 17:85
    Content type: Research article Published on:

  24. A very large and rapidly growing collection of transcriptomic profiles in public repositories is potentially of great value to developing data-driven bioinformatics applications for toxicology/ecotoxicology. M...

    Authors: Rong-Lin Wang, Adam D. Biales, Natalia Garcia-Reyero, Edward J. Perkins, Daniel L. Villeneuve, Gerald T. Ankley and David C. Bencic
    Citation: BMC Genomics 2016 17:84
    Content type: Research article Published on:

  25. Chemical senses serve a multitude of essential functions across the animal kingdom. Vertebrates employ four GPCR families to detect odors, among them the v1r/ora gene family. The V1R family is known to evolve rap...

    Authors: Veronika Zapilko and Sigrun I. Korsching
    Citation: BMC Genomics 2016 17:83
    Content type: Research article Published on:

  26. Avian infectious bronchitis is a highly contagious disease of the upper-respiratory tract caused by infectious bronchitis virus (IBV). Understanding the molecular mechanisms involved in the interaction between...

    Authors: Edin Hamzić, Rikke Brødsgaard Kjærup, Núria Mach, Guilietta Minozzi, Francesco Strozzi, Valentina Gualdi, John L. Williams, Jun Chen, Eva Wattrang, Bart Buitenhuis, Helle Risdahl Juul-Madsen and Tina Sørensen Dalgaard
    Citation: BMC Genomics 2016 17:82
    Content type: Research article Published on:

  27. Molecular mechanisms associated with sexual dimorphism in cattle have not been well elucidated. Furthermore, as recent studies have implied that gene expression patterns are highly tissue specific, it is essen...

    Authors: Minseok Seo, Kelsey Caetano-Anolles, Sandra Rodriguez-Zas, Sojeong Ka, Jin Young Jeong, Sungkwon Park, Min Ji Kim, Whan-Gook Nho, Seoae Cho, Heebal Kim and Hyun-Jeong Lee
    Citation: BMC Genomics 2016 17:81
    Content type: Research article Published on:

  28. MADS-box genes encode transcription factors that are involved in developmental control and signal transduction in eukaryotes. In plants, they are associated to numerous development processes most notably those...

    Authors: Jérôme Grimplet, José Miguel Martínez-Zapater and María José Carmona
    Citation: BMC Genomics 2016 17:80
    Content type: Research article Published on:

  29. Mycobacterium avium subspecies paratuberculosis (Map) is an infectious enteric pathogen that causes Johne’s disease in livestock. Determining genetic diversity is prerequisite to under...

    Authors: Josephine M. Bryant, Virginie C. Thibault, David G. E. Smith, Joyce McLuckie, Ian Heron, Iker A. Sevilla, Franck Biet, Simon R. Harris, Duncan J. Maskell, Stephen D. Bentley, Julian Parkhill and Karen Stevenson
    Citation: BMC Genomics 2016 17:79
    Content type: Research article Published on:

  30. Metagenomics is the study of microbial communities by sequencing of genetic material directly from environmental or clinical samples. The genes present in the metagenomes are quantified by annotating and count...

    Authors: Viktor Jonsson, Tobias Österlund, Olle Nerman and Erik Kristiansson
    Citation: BMC Genomics 2016 17:78
    Content type: Research article Published on:

  31. The American alligator (Alligator mississippiensis) displays temperature-dependent sex determination (TSD), in which incubation temperature during embryonic development determines the sexual fate of the individua...

    Authors: Ryohei Yatsu, Shinichi Miyagawa, Satomi Kohno, Benjamin B. Parrott, Katsushi Yamaguchi, Yukiko Ogino, Hitoshi Miyakawa, Russell H. Lowers, Shuji Shigenobu, Louis J. Guillette Jr. and Taisen Iguchi
    Citation: BMC Genomics 2016 17:77
    Content type: Research article Published on:

  33. Cancer genomics projects are producing ever-increasing amounts of rich and diverse data from patient samples. The ability to easily visualize this data in an integrated an intuitive way is currently limited by...

    Authors: Aaron R. Shifman, Radia M. Johnson and Brian T. Wilhelm
    Citation: BMC Genomics 2016 17:75
    Content type: Software Published on:

  34. The two-spotted spider mite, Tetranychus urticae, is an extreme generalist plant pest. Even though mites can feed on many plant species, local mite populations form host races that do not perform equally well on ...

    Authors: Jose Díaz-Riquelme, Vladimir Zhurov, Cristina Rioja, Ignacio Pérez-Moreno, Rafael Torres-Pérez, Jérôme Grimplet, Pablo Carbonell-Bejerano, Sabina Bajda, Thomas Van Leeuwen, José Miguel Martínez-Zapater, Miodrag Grbic and Vojislava Grbic
    Citation: BMC Genomics 2016 17:74
    Content type: Research article Published on:

  35. Improving feed efficiency (FE) of pigs by genetic selection is of economic and environmental significance. An increasingly accepted measure of feed efficiency is residual feed intake (RFI). Currently, the mole...

    Authors: Haibo Liu, Yet T. Nguyen, Dan Nettleton, Jack C. M. Dekkers and Christopher K. Tuggle
    Citation: BMC Genomics 2016 17:73
    Content type: Research article Published on:

  36. Since the development of in vitro embryo production in cattle, different supplements have been added to culture media to support embryo development, with serum being the most popular. However, the addition of ...

    Authors: Sonia Heras, Dieter I. M. De Coninck, Mario Van Poucke, Karen Goossens, Osvaldo Bogado Pascottini, Filip Van Nieuwerburgh, Dieter Deforce, Petra De Sutter, Jo L. M. R. Leroy, Alfonso Gutierrez-Adan, Luc Peelman and Ann Van Soom
    Citation: BMC Genomics 2016 17:72
    Content type: Research article Published on:

  37. Gene duplication is a genetic mutation that creates functionally redundant gene copies that are initially relieved from selective pressures and may adapt themselves to new functions with time. The levels of ge...

    Authors: Debarun Acharya and Tapash C. Ghosh
    Citation: BMC Genomics 2016 17:71
    Content type: Research article Published on:

  38. While many placental herpesvirus genomes have been fully sequenced, the complete genome of a marsupial herpesvirus has not been described. Here we present the first genome sequence of a metatherian herpesvirus, M...

    Authors: Paola K. Vaz, Timothy J. Mahony, Carol A. Hartley, Elizabeth V. Fowler, Nino Ficorilli, Sang W. Lee, James R. Gilkerson, Glenn F. Browning and Joanne M. Devlin
    Citation: BMC Genomics 2016 17:70
    Content type: Research article Published on:

  39. The Red Palm Weevil (RPW) Rhynchophorus ferrugineus (Oliver) is one of the most damaging invasive insect species in the world. This weevil is highly specialized to thrive in adverse desert climates, and it causes...

    Authors: Binu Antony, Alan Soffan, Jernej Jakše, Mahmoud M. Abdelazim, Saleh A. Aldosari, Abdulrahman S. Aldawood and Arnab Pain
    Citation: BMC Genomics 2016 17:69
    Content type: Research article Published on:

  41. Long noncoding RNAs (lncRNAs) play roles in almost all biological processes; however, their function and profile in skin development and pigmentation is less understood. In addition, because lncRNAs are specie...

    Authors: Hangxing Ren, Gaofu Wang, Lei Chen, Jing Jiang, Liangjia Liu, Nianfu Li, Jinhong Zhao, Xiaoyan Sun and Peng Zhou
    Citation: BMC Genomics 2016 17:67
    Content type: Research article Published on:

  42. Basal stem rot (BSR) is a fungal disease in oil palm (Elaeis guineensis Jacq.) which is caused by hemibiotrophic white rot fungi belonging to the Ganoderma genus. Molecular responses of oil palm to these pathogen...

    Authors: Chai-Ling Ho, Yung-Chie Tan, Keat-Ai Yeoh, Ahmad-Kamal Ghazali, Wai-Yan Yee and Chee-Choong Hoh
    Citation: BMC Genomics 2016 17:66
    Content type: Research article Published on:

  43. Identification of synthetic lethal interactions in cancer cells could offer promising new therapeutic targets. Large-scale functional genomic screening presents an opportunity to test large numbers of cancer s...

    Authors: Mark Wappett, Austin Dulak, Zheng Rong Yang, Abdullatif Al-Watban, James R. Bradford and Jonathan R. Dry
    Citation: BMC Genomics 2016 17:65
    Content type: Research article Published on:

  44. The human genome contains variants ranging in size from small single nucleotide polymorphisms (SNPs) to large structural variants (SVs). High-quality benchmark small variant calls for the pilot National Instit...

    Authors: Hemang Parikh, Marghoob Mohiyuddin, Hugo Y. K. Lam, Hariharan Iyer, Desu Chen, Mark Pratt, Gabor Bartha, Noah Spies, Wolfgang Losert, Justin M. Zook and Marc Salit
    Citation: BMC Genomics 2016 17:64
    Content type: Research article Published on:

  45. The American lobster, Homarus americanus, is an important species as an economically valuable fishery, a key member in marine ecosystems, and a well-studied model for central pattern generation, the neural networ...

    Authors: Lara Lewis McGrath, Steven V. Vollmer, Stefan T. Kaluziak and Joseph Ayers
    Citation: BMC Genomics 2016 17:63
    Content type: Research article Published on:

  46. Apoptotic cell death is a defining and ubiquitous characteristic of metazoans, but its evolutionary origins are unclear. Although Caenorhabditis and Drosophila played key roles in establishing the molecular bases...

    Authors: Aurelie Moya, Kazuhiro Sakamaki, Benjamin M. Mason, Lotte Huisman, Sylvain Forêt, Yvonne Weiss, Tara E. Bull, Kentaro Tomii, Kenichiro Imai, David C. Hayward, Eldon E. Ball and David J. Miller
    Citation: BMC Genomics 2016 17:62
    Content type: Research article Published on:

  47. RNA-editing is a tightly regulated, and essential cellular process for a properly functioning brain. Dysfunction of A-to-I RNA editing can have catastrophic effects, particularly in the central nervous system....

    Authors: Melanie A. Huntley, Melanie Lou, Leonard D. Goldstein, Michael Lawrence, Gerrit J.P. Dijkgraaf, Joshua S. Kaminker and Robert Gentleman
    Citation: BMC Genomics 2016 17:61
    Content type: Research Article Published on:

  48. Rust caused by Melampsora larici-populina is one of the most damaging diseases of poplars. Rust is considered to be a model pathogen for genetic studies because both pathogen and host genomes are available. The p...

    Authors: Danlei Li, Feng Wang, Chao Wang, Li Zou, Zhiying Wang, Qiaoli Chen, Chunyang Niu, Ruizhi Zhang, Yaming Ling and Bowen Wang
    Citation: BMC Genomics 2016 17:59
    Content type: Research article Published on:

  49. Type VI secretion systems (T6SSs) are contact-dependent antagonistic systems employed by Gram negative bacteria to intoxicate other bacteria or eukaryotic cells. T6SSs were recently discovered in a few Bactero...

    Authors: Michael J. Coyne, Kevin G. Roelofs and Laurie E. Comstock
    Citation: BMC Genomics 2016 17:58
    Content type: Research article Published on:

  50. Soybean is a major crop that provides an important source of protein and oil to humans and animals, but its production can be dramatically decreased by the occurrence of drought stress. Soybeans can survive dr...

    Authors: Li Song, Silvas Prince, Babu Valliyodan, Trupti Joshi, Joao V. Maldonado dos Santos, Jiaojiao Wang, Li Lin, Jinrong Wan, Yongqin Wang, Dong Xu and Henry T. Nguyen
    Citation: BMC Genomics 2016 17:57
    Content type: Research article Published on:

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BMC Genomics

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