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  1. Since domestication, chickens did not only disperse into the different parts of the world but they have also undergone significant genomic changes in this process. Many breeds, strains or lines have been forme...

    Authors: Dorcus Kholofelo Malomane, Henner Simianer, Annett Weigend, Christian Reimer, Armin Otto Schmitt and Steffen Weigend
    Citation: BMC Genomics 2019 20:345
    Content type: Research article Published on:

  2. Our understanding of the pig transcriptome is limited. RNA transcript diversity among nine tissues was assessed using poly(A) selected single-molecule long-read isoform sequencing (Iso-seq) and Illumina RNA se...

    Authors: H. Beiki, H. Liu, J. Huang, N. Manchanda, D. Nonneman, T. P. L. Smith, J. M. Reecy and C. K. Tuggle
    Citation: BMC Genomics 2019 20:344
    Content type: Research article Published on:

  3. Caixin and Zicaitai (Brassica rapa) belong to Southern and Central China respectively. Zicaitai contains high amount of anthocyanin in leaf and stalk resulting to the purple color. Stalk is the major edible part ...

    Authors: Gui-Hua Li, Han-Cai Chen, Jia-Li Liu, Wen-Long Luo, Da-Sen Xie, Shao-Bo Luo, Ting-Quan Wu, Waheed Akram and Yu-Juan Zhong
    Citation: BMC Genomics 2019 20:343
    Content type: Research article Published on:

  4. In our previous study, we identified four isoforms of the Bmovo gene, Bmovo-1, Bmovo-2, Bmovo-3 and Bmovo-4 from the silkworm ovary and verified that ovarian development was regulated by the BmOVO proteins. Resul...

    Authors: Min Zhu, Xiaolong Hu, Zi Liang, Mengsheng Jiang, Renyu Xue, Yongchang Gong, Xing Zhang, Guangli Cao and Chengliang Gong
    Citation: BMC Genomics 2019 20:342
    Content type: Research article Published on:

  5. Elevated water temperature, as is expected through climate change, leads to masculinization in fish species with sexual plasticity, resulting in changes in population dynamics. These changes are one important ...

    Authors: Shahrbanou Hosseini, Ngoc-Thuy Ha, Henner Simianer, Clemens Falker-Gieske, Bertram Brenig, Andre Franke, Gabriele Hörstgen-Schwark, Jens Tetens, Sebastian Herzog and Ahmad Reza Sharifi
    Citation: BMC Genomics 2019 20:341
    Content type: Research article Published on:

  6. Lysine crotonylation, as a novel evolutionarily conserved type of post-translational modifications, is ubiquitous and essential in cell biology. However, its functions in tea plants are largely unknown, and th...

    Authors: Jianhao Sun, Chen Qiu, Wenjun Qian, Yu Wang, Litao Sun, Yusheng Li and Zhaotang Ding
    Citation: BMC Genomics 2019 20:340
    Content type: Research article Published on:

  7. Obligate sulfur oxidizing chemolithoauthotrophic strains of Hydrogenovibrio crunogenus have been isolated from multiple hydrothermal vent associated habitats. However, a hydrogenase gene cluster (encoding the hyd...

    Authors: Giorgio Gonnella, Nicole Adam and Mirjam Perner
    Citation: BMC Genomics 2019 20:339
    Content type: Research article Published on:

  8. Bacteria carry a wide array of genes, some of which have multiple alleles. These different alleles are often responsible for distinct types of virulence and can determine the classification at the subspecies l...

    Authors: Lusine Khachatryan, Margriet E. M. Kraakman, Alexandra T. Bernards and Jeroen F. J. Laros
    Citation: BMC Genomics 2019 20:338
    Content type: Methodology article Published on:

  9. Chinese cordyceps, also known as Chinese caterpillar fungus (Ophiocordyceps sinensis, syn. Cordyceps sinensis), is of particular interest for its cryptic life cycle and economic and ecological importance. The lar...

    Authors: Xiao Li, Fen Wang, Qing Liu, Quanping Li, Zhengming Qian, Xiaoling Zhang, Kuan Li, Wenjia Li and Caihong Dong
    Citation: BMC Genomics 2019 20:337
    Content type: Research article Published on:

  10. Triploid coho salmon are excellent models for studying gene dosage and the effects of increased cell volume on gene expression. Triploids have an additional haploid genome in each cell and have fewer but large...

    Authors: Kris A. Christensen, Dionne Sakhrani, Eric B. Rondeau, Jeffery Richards, Ben F. Koop and Robert H. Devlin
    Citation: BMC Genomics 2019 20:336
    Content type: Research article Published on:

  11. The recently published complete mitogenome of the European lobster (Homarus gammarus) that was generated using long-range PCR exhibits unusual gene composition (missing nad2) and gene rearrangements among decapod...

    Authors: Han Ming Gan, Frederic Grandjean, Tom L. Jenkins and Christopher Mervyn Austin
    Citation: BMC Genomics 2019 20:335
    Content type: Research article Published on:

  12. Iberian primitive breeds exhibit a remarkable phenotypic diversity over a very limited geographical space. While genomic data are accumulating for most commercial cattle, it is still lacking for these primitiv...

    Authors: Rute R. da Fonseca, Irene Ureña, Sandra Afonso, Ana Elisabete Pires, Emil Jørsboe, Lounès Chikhi and Catarina Ginja
    Citation: BMC Genomics 2019 20:334
    Content type: Research article Published on:

  14. Rhodococcus ruber strain Chol-4, a strain isolated from a sewage sludge sample, is able to grow in minimal medium supplemented with several compounds, showing a broad catabolic capacity. We have previously determ...

    Authors: Govinda Guevara, Maria Castillo Lopez, Sergio Alonso, Julián Perera and Juana María Navarro-Llorens
    Citation: BMC Genomics 2019 20:332
    Content type: Research article Published on:

  15. Both a source of diversity and the development of genomic tools, such as reference genomes and molecular markers, are equally important to enable faster progress in plant breeding. Pear (Pyrus spp.) lags far behi...

    Authors: Sara Montanari, Luca Bianco, Brian J. Allen, Pedro J. Martínez-García, Nahla V. Bassil, Joseph Postman, Mareike Knäbel, Biff Kitson, Cecilia H. Deng, David Chagné, Marc W. Crepeau, Charles H. Langley, Kate Evans, Amit Dhingra, Michela Troggio and David B. Neale
    Citation: BMC Genomics 2019 20:331
    Content type: Research article Published on:

  16. Oenococcus oeni is a lactic acid bacteria species adapted to the low pH, ethanol-rich environments of wine and cider fermentation, where it performs the crucial role of malolactic fermentation. It has a small gen...

    Authors: Marc P. Lorentzen, Hugo Campbell-Sills, Tue S. Jorgensen, Tue K. Nielsen, Monika Coton, Emmanuel Coton, Lars Hansen and Patrick M. Lucas
    Citation: BMC Genomics 2019 20:330
    Content type: Research article Published on:

  17. Ionizing Radiation (IR) is a known pro-inflammatory agent and in the process of development of biomarkers for radiation biodosimetry, a chronic inflammatory disease condition could act as a confounding factor....

    Authors: Sanjay Mukherjee, Evagelia C. Laiakis, Albert J. Fornace Jr and Sally A. Amundson
    Citation: BMC Genomics 2019 20:329
    Content type: Research article Published on:

  18. Growth rate is one of the most important features for aquaculture species and deciphering its regulation mechanism has great significance both in genetics and in economics. Hypothalamus-pituitary growth axis (...

    Authors: Beide Fu, Xiaomu Yu, Jingou Tong, Meixia Pang, Ying Zhou, Qingshan Liu and Wenjing Tao
    Citation: BMC Genomics 2019 20:328
    Content type: Research article Published on:

  19. Bacillus pumilus is a Gram-positive and endospore-forming bacterium broadly existing in a variety of environmental niches. Because it produces and secrets many industrially useful enzymes, a lot of studies have b...

    Authors: Lin-Li Han, Yong-Cheng Liu, Cui-Cui Miao and Hong Feng
    Citation: BMC Genomics 2019 20:327
    Content type: Research article Published on:

  20. Controlled turnover of proteins as mediated by the ubiquitin proteasome system (UPS) is an important element in plant defense against environmental and pathogen stresses. E3 ligases play a central role in subj...

    Authors: Moon Young Ryu, Seok Keun Cho, Yourae Hong, Jinho Kim, Jong Hum Kim, Gu Min Kim, Yan-Jun Chen, Eva Knoch, Birger Lindberg Møller, Woo Taek Kim, Michael Foged Lyngkjær and Seong Wook Yang
    Citation: BMC Genomics 2019 20:326
    Content type: Research article Published on:

  21. Water deficit and soil salinity substantially influence plant growth and productivity. When occurring individually, plants often exhibit reduced growth resulting in yield losses. The simultaneous occurrence of...

    Authors: Alina Osthoff, Petra Donà dalle Rose, Jutta A. Baldauf, Hans-Peter Piepho and Frank Hochholdinger
    Citation: BMC Genomics 2019 20:325
    Content type: Research article Published on:

  22. During decidualization in endometrial stromal cells (ESCs), expressions of a number of genes and epigenetic modifications of histones are altered. However, there is little information about whether DNA methyla...

    Authors: Ryo Maekawa, Isao Tamura, Masahiro Shinagawa, Yumiko Mihara, Shun Sato, Maki Okada, Toshiaki Taketani, Hiroshi Tamura and Norihiro Sugino
    Citation: BMC Genomics 2019 20:324
    Content type: Research article Published on:

    The Correction to this article has been published in BMC Genomics 2024 25:343

  23. Artificial induction of mutagenesis is effective for genetic resource innovation and breeding. However, the traditional mutation methods for fish breeding are not convenient or safe for daily use. Hence, devel...

    Authors: Hou Ji-Lun, Zhang Xiao-Yan, Wang Gui-Xing, Sun Zhao-Hui, Du Wei, Zhao Ya-Xian, Si Fei, Wang Li-Yan, Xing Xin-Hui and Wang Yu-Fen
    Citation: BMC Genomics 2019 20:323
    Content type: Research article Published on:

  24. In this study we integrated the CNV (copy number variation) and WssGWAS (weighted single-step approach for genome-wide association) analyses to increase the knowledge about number of piglets born alive, an eco...

    Authors: Nedenia Bonvino Stafuzza, Rafael Medeiros de Oliveira Silva, Breno de Oliveira Fragomeni, Yutaka Masuda, Yijian Huang, Kent Gray and Daniela A. Lino Lourenco
    Citation: BMC Genomics 2019 20:321
    Content type: Research article Published on:

  25. Crocins are soluble apocarotenoids that mainly accumulate in the stigma tissue of Crocus sativus and provide the characteristic red color to saffron spice, in addition to being responsible for many of the medicin...

    Authors: Oussama Ahrazem, Javier Argandoña, Alessia Fiore, Andrea Rujas, Ángela Rubio-Moraga, Raquel Castillo and Lourdes Gómez-Gómez
    Citation: BMC Genomics 2019 20:320
    Content type: Research article Published on:

  27. Salinity is an abiotic stress that negatively affects soybean [Glycine max (L.) Merr.] seed yield. Although a major gene for salt tolerance was identified and consistently mapped to chromosome (Chr.) 3 by linkage...

    Authors: Tuyen D. Do, Tri D. Vuong, David Dunn, Michael Clubb, Babu Valliyodan, Gunvant Patil, Pengyin Chen, Dong Xu, Henry T. Nguyen and J. Grover Shannon
    Citation: BMC Genomics 2019 20:318
    Content type: Research article Published on:

  28. WUSCHEL-related homeobox (WOX) genes encoding plant-specific homeobox (HB) transcription factors play important roles in the growth and development of plants. To date, WOX genes has been identified and analyzed i...

    Authors: Mengdi Li, Ruihua Wang, Zhengyi Liu, Xiaoming Wu and Jianbo Wang
    Citation: BMC Genomics 2019 20:317
    Content type: Research article Published on:

  29. Though intensive genetic selection has led to extraordinary advances in growth rate and feed efficiency in production of meat-type chickens, endocrine processes controlling these traits are still poorly unders...

    Authors: Laura E. Ellestad, Larry A. Cogburn, Jean Simon, Elisabeth Le Bihan-Duval, Samuel E. Aggrey, Mardi S. Byerly, Michel J. Duclos and Tom E. Porter
    Citation: BMC Genomics 2019 20:316
    Content type: Research article Published on:

  30. Early development of an oviparous organism is based on maternally stocked structural, nutritional and regulatory components. These components influence the future developmental potential of an embryo, which is...

    Authors: Teshome Tilahun Bizuayehu, Maren Mommens, Arvind Y. M. Sundaram, Anusha K. S. Dhanasiri and Igor Babiak
    Citation: BMC Genomics 2019 20:315
    Content type: Research article Published on:

  31. The Fusarium incarnatum-equiseti species complex (FIESC) comprises 33 phylogenetically distinct species that have been recovered from diverse biological sources, but have been most often isolated from agricultura...

    Authors: Alessandra Villani, Robert H. Proctor, Hye-Seon Kim, Daren W. Brown, Antonio F. Logrieco, Maria Teresa Amatulli, Antonio Moretti and Antonia Susca
    Citation: BMC Genomics 2019 20:314
    Content type: Research article Published on:

  32. Gene duplication underlies a significant proportion of gene functional diversity and genome complexity in both eukaryotes and prokaryotes. Although several reports in the literature described the duplication o...

    Authors: Manuel Bernabeu, José Francisco Sánchez-Herrero, Pol Huedo, Alejandro Prieto, Mário Hüttener, Julio Rozas and Antonio Juárez
    Citation: BMC Genomics 2019 20:313
    Content type: Research article Published on:

  33. Climate change models predict more frequent incidents of heat stress worldwide. This trend will contribute to food insecurity, particularly for some of the most vulnerable regions, by limiting the productivity...

    Authors: Ali Soltani, Sarathi M. Weraduwage, Thomas D. Sharkey and David B. Lowry
    Citation: BMC Genomics 2019 20:312
    Content type: Research article Published on:

  34. Integration of T-DNA into plant genomes via Agrobacterium may interrupt gene structure and generate numerous mutants. The T-DNA caused mutants are valuable materials for understanding T-DNA integration model in p...

    Authors: Huixin Gang, Guifeng Liu, Manman Zhang, Yuming Zhao, Jing Jiang and Su Chen
    Citation: BMC Genomics 2019 20:311
    Content type: Research article Published on:

  35. The genetic diversity in Australian populations of Xanthomonas species associated with bacterial leaf spot in tomato, capsicum and chilli were compared to worldwide bacterial populations. The aim of this study wa...

    Authors: R. Roach, R. Mann, C. G. Gambley, T. Chapman, R. G. Shivas and B. Rodoni
    Citation: BMC Genomics 2019 20:310
    Content type: Research article Published on:

  36. Trait loss is a pervasive phenomenon in evolution, yet the underlying molecular causes have been identified in only a handful of cases. Most of these cases involve loss-of-function mutations in one or more tra...

    Authors: Mark Lammers, Ken Kraaijeveld, Janine Mariën and Jacintha Ellers
    Citation: BMC Genomics 2019 20:309
    Content type: Research article Published on:

  37. Physical forces, such as mechanical stress, are essential for tissue homeostasis and influence gene expression of cells. In particular, the fibroblast has demonstrated sensitivity to extracellular matrices wit...

    Authors: Alexander G. Foote, Ziyue Wang, Christina Kendziorski and Susan L. Thibeault
    Citation: BMC Genomics 2019 20:308
    Content type: Research article Published on:

  38. Protein kinases are enzymes controlling different cellular functions. Genetic alterations often result in kinase dysregulation, making kinases a very attractive class of druggable targets in several human dise...

    Authors: Giovanni Carapezza, Carlo Cusi, Ettore Rizzo, Laura Raddrizzani, Sebastiano Di Bella, Alessio Somaschini, Antonella Leone, Rosita Lupi, Margherita Mutarelli, Vincenzo Nigro, Diego di Bernardo, Paolo Magni, Antonella Isacchi and Roberta Bosotti
    Citation: BMC Genomics 2019 20:307
    Content type: Methodology article Published on:

  39. DNA methylation plays an important role in multiple biological processes that are closely related to human health. The study of DNA methylation can provide an insight into the mechanism behind human health and...

    Authors: Limin Jiang, Chongqing Wang, Jijun Tang and Fei Guo
    Citation: BMC Genomics 2019 20:306
    Content type: Research article Published on:

    The Correction to this article has been published in BMC Genomics 2019 20:365

  40. Evolutionary theory indicates that the dynamics of aging in the soma and reproductive tissues may be distinct. This difference arises from the fact that only the germline lineage establishes future generations...

    Authors: Alexandra A. Erwin and Justin P. Blumenstiel
    Citation: BMC Genomics 2019 20:305
    Content type: Research article Published on:

  41. Although rapeseed (Brassica napus L.) mutant forming multiple siliques was morphologically described and considered to increase the silique number per plant, an important agronomic trait in this crop, the molecul...

    Authors: Liang Chai, Jinfang Zhang, Kun Lu, Haojie Li, Lintao Wu, Hongshen Wan, Benchuan Zheng, Cheng Cui, Jun Jiang and Liangcai Jiang
    Citation: BMC Genomics 2019 20:304
    Content type: Research article Published on:

  42. Glyoxalase pathway is a reactive carbonyl species (RCS) scavenging mechanism involved in the detoxification of methylglyoxal (MG), which is a reactive α-ketoaldehyde. In plants under abiotic stress, the cellul...

    Authors: Vadakkancherry Mohanan Manoj, Pushpanathan Anunanthini, Peter Clarancia Swathik, Selvarajan Dharshini, Jayanarayanan Ashwin Narayan, Markandan Manickavasagam, Ramalingam Sathishkumar, Giriyapura Shivalingamurthy Suresha, Govind Hemaprabha, Bakshi Ram and Chinnaswamy Appunu
    Citation: BMC Genomics 2019 19(Suppl 9):986
    Content type: Research Published on:

    This article is part of a Supplement: Volume 19 Supplement 9

  43. Fragile sites are the chromosomal regions that are susceptible to breakage, and their frequency varies among the human population. Based on the frequency of fragile site induction, they are categorized as comm...

    Authors: Rajesh Kumar, Gandharva Nagpal, Vinod Kumar, Salman Sadullah Usmani, Piyush Agrawal and Gajendra P. S. Raghava
    Citation: BMC Genomics 2019 19(Suppl 9):985
    Content type: Database Published on:

    This article is part of a Supplement: Volume 19 Supplement 9

  44. Post-translational modification (PTM), which is a biological process, tends to modify proteome that leads to changes in normal cell biology and pathogenesis. In the recent times, there has been many reported P...

    Authors: Abel Avitesh Chandra, Alok Sharma, Abdollah Dehzangi and Tatushiko Tsunoda
    Citation: BMC Genomics 2019 19(Suppl 9):984
    Content type: Research Published on:

    This article is part of a Supplement: Volume 19 Supplement 9

  45. MicroRNAs (miRNAs) are small non-coding RNAs that play important roles by regulating other genes. Rosa rugosa Thunb. is an important ornamental and edible plant, yet there are only a few studies on the miRNAs and...

    Authors: Junqiang Guo, Qingyi Wang, Li Liu, Shuchao Ren, Shipeng Li, Peiran Liao, Zhigang Zhao, Chenyu Lu, Bingbing Jiang, Ramanjulu Sunkar and Yun Zheng
    Citation: BMC Genomics 2019 19(Suppl 9):983
    Content type: Research Published on:

    This article is part of a Supplement: Volume 19 Supplement 9

  46. Post-translational modifications are viewed as an important mechanism for controlling protein function and are believed to be involved in multiple important diseases. However, their profiling using laboratory-...

    Authors: Alok Sharma, Artem Lysenko, Yosvany López, Abdollah Dehzangi, Ronesh Sharma, Hamendra Reddy, Abdul Sattar and Tatsuhiko Tsunoda
    Citation: BMC Genomics 2019 19(Suppl 9):982
    Content type: Research Published on:

    This article is part of a Supplement: Volume 19 Supplement 9

  47. .

    Authors: Vanessa Carvalho Cayres Pamponét, Margarete Magalhães Souza, Gonçalo Santos Silva, Fabienne Micheli, Cláusio Antônio Ferreira de Melo, Sarah Gomes de Oliveira, Eduardo Almeida Costa and Ronan Xavier Corrêa
    Citation: BMC Genomics 2019 20:303
    Content type: Correction Published on:

    The original article was published in BMC Genomics 2019 20:262

  48. Genomic selection accuracy increases with the use of high SNP (single nucleotide polymorphism) coverage. However, such gains in coverage come at high costs, preventing their prompt operational implementation b...

    Authors: Marie Pégard, Odile Rogier, Aurélie Bérard, Patricia Faivre-Rampant, Marie-Christine Le Paslier, Catherine Bastien, Véronique Jorge and Leopoldo Sánchez
    Citation: BMC Genomics 2019 20:302
    Content type: Research article Published on:

  49. InCoB, one of the largest annual bioinformatics conferences in the Asia-Pacific region since its launch in 2002, returned to New Delhi, India after 12 years, with a conference attendance of 314 delegates. The ...

    Authors: Shandar Ahmad, Michael M. Gromiha, Gajendra P. S. Raghava, Christian Schönbach and Shoba Ranganathan
    Citation: BMC Genomics 2019 19(Suppl 9):266
    Content type: Introduction Published on:

    This article is part of a Supplement: Volume 19 Supplement 9

  50. With the rapid increase in genome sequencing projects for non-model organisms, numerous genome assemblies are currently in progress or available as drafts, but not made available as satisfactory, usable genome...

    Authors: Li-An Yang, Yu-Jung Chang, Shu-Hwa Chen, Chung-Yen Lin and Jan-Ming Ho
    Citation: BMC Genomics 2019 19(Suppl 9):238
    Content type: Research Published on:

    This article is part of a Supplement: Volume 19 Supplement 9

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