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Non-human and non-rodent vertebrate genomics

Section edited by Shane Burgess and Jacqueline Smith

This section covers all aspects of the genomics of vertebrates, excluding humans, primates and rodents, including livestock species.

Page 3 of 19

  1. Overfeeding reduces laying performance in broiler breeder hens, which is associated with obesity, hepatic steatosis and systemic inflammation. To unravel the underlying mechanisms governing the effect of feedi...

    Authors: Zehui Wei, Pengcheng Li, Sijia Huang, Purevsuren Lkhagvagarav, Mengqi Zhu, Chuanyu Liang and Cunling Jia

    Citation: BMC Genomics 2019 20:408

    Content type: Research article

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  2. Fertility in dairy cows depends on ovarian cyclicity and on uterine involution. Ovarian cyclicity and uterine involution are delayed when there is uterine dysbiosis (overgrowth of pathogenic bacteria). Fertili...

    Authors: Stephen G. Moore, Aaron C. Ericsson, Susanta K. Behura, William R. Lamberson, Timothy J. Evans, Matthew S. McCabe, Scott E. Poock and Matthew C. Lucy

    Citation: BMC Genomics 2019 20:405

    Content type: Research article

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  3. Human milk oligosaccharides (OS) play a key role in brain and gut microbiota development of the neonate, but the underlying biosynthetic steps of OS in the mammary gland are still largely unknown. As bovine mi...

    Authors: Nina A. Poulsen, Randall C. Robinson, Daniela Barile, Lotte B. Larsen and Bart Buitenhuis

    Citation: BMC Genomics 2019 20:404

    Content type: Research article

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  4. Adenovirus protein, Gam1, triggers the proteolytic destruction of the E1 SUMO-activating enzyme. Microinjection of an empirically determined amount of Gam1 mRNA into one-cell Xenopus embryos can reduce SUMOylatio...

    Authors: Michelle M. Bertke, Kyle M. Dubiak, Laura Cronin, Erliang Zeng and Paul W. Huber

    Citation: BMC Genomics 2019 20:386

    Content type: Research article

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  5. Copy number variations (CNVs), which are genetic variations present throughout mammalian genomes, are a vital source of phenotypic variation that can lead to the development of unique traits. In this study we ...

    Authors: Congjun Jia, Hongbo Wang, Chen Li, Xiaoyun Wu, Linsen Zan, Xuezhi Ding, Xian Guo, Pengjia Bao, Jie Pei, Min Chu, Chunnian Liang and Ping Yan

    Citation: BMC Genomics 2019 20:376

    Content type: Research article

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  6. Dysregulation of adipogenesis causes metabolic diseases, like obesity and fatty liver. Migratory birds such as geese have a high tolerance of massive energy intake and exhibit little pathological development. ...

    Authors: Guosong Wang, Long Jin, Yan Li, Qianzi Tang, Silu Hu, Hengyong Xu, Clare A. Gill, Mingzhou Li and Jiwen Wang

    Citation: BMC Genomics 2019 20:372

    Content type: Research article

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  7. Palatoschisis or cleft palate is a known anomaly in pigs resulting in their death. However, little is known about its aetiology. A detailed description of the phenotype was derived from necropsy and by compute...

    Authors: Alexander Grahofer, Anna Letko, Irene Monika Häfliger, Vidhya Jagannathan, Alain Ducos, Olivia Richard, Vanessa Peter, Heiko Nathues and Cord Drögemüller

    Citation: BMC Genomics 2019 20:349

    Content type: Research article

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  8. 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

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  9. 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

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  10. 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

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  11. 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

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  12. 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

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  13. 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

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  14. Cattle populations are highly amenable to the genetic mapping of male reproductive traits because longitudinal data on ejaculate quality and dense microarray-derived genotypes are available for thousands of ar...

    Authors: Terhi Iso-Touru, Christine Wurmser, Heli Venhoranta, Maya Hiltpold, Tujia Savolainen, Anu Sironen, Konrad Fischer, Krzysztof Flisikowski, Ruedi Fries, Alejandro Vicente-Carrillo, Manuel Alvarez-Rodriguez, Szabolcs Nagy, Mervi Mutikainen, Jaana Peippo, Juhani Taponen, Goutam Sahana…

    Citation: BMC Genomics 2019 20:286

    Content type: Research article

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  15. The interferon-induced transmembrane (IFITM) protein family comprises a class of restriction factors widely characterised in humans for their potent antiviral activity. Their biological activity is well docume...

    Authors: Irene Bassano, Swee Hoe Ong, Maximo Sanz-Hernandez, Michal Vinkler, Adebabay Kebede, Olivier Hanotte, Ebele Onuigbo, Mark Fife and Paul Kellam

    Citation: BMC Genomics 2019 20:272

    Content type: Research article

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  16. The Russian White is a gene pool breed, registered in 1953 after crossing White Leghorns with local populations and, for 50 years, selected for cold tolerance and high egg production (EL). The breed has great ...

    Authors: Andrei A. Kudinov, Natalia V. Dementieva, Olga V. Mitrofanova, Olga I. Stanishevskaya, Elena S. Fedorova, Tatiana A. Larkina, Arina I. Mishina, Kirill V. Plemyashov, Darren K. Griffin and Michael N. Romanov

    Citation: BMC Genomics 2019 20:270

    Content type: Research article

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  17. Fertility is among the most important economic traits in dairy cattle. Genomic prediction for cow fertility has received much attention in the last decade, while bull fertility has been largely overlooked. The...

    Authors: Juan Pablo Nani, Fernanda M. Rezende and Francisco Peñagaricano

    Citation: BMC Genomics 2019 20:258

    Content type: Research article

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  18. An unfavorable genetic correlation between milk production and fertility makes simultaneous improvement of milk production and fertility difficult in cattle breeding. Rapid genetic improvement in milk producti...

    Authors: Zexi Cai, Bernt Guldbrandtsen, Mogens Sandø Lund and Goutam Sahana

    Citation: BMC Genomics 2019 20:255

    Content type: Research article

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  19. Placental efficiency (PE) describes the relationship between placental and fetal weights (fetal wt/placental wt). Within litters, PE can vary drastically, resulting in similarly sized pigs associated with diff...

    Authors: Shanice K. Krombeen, Vijay Shankar, Rooksana E. Noorai, Christopher A. Saski, Julia L. Sharp, Matthew E. Wilson and Tiffany A. Wilmoth

    Citation: BMC Genomics 2019 20:254

    Content type: Research article

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  20. Marek’s disease virus (MDV) is an oncogenic herpesvirus that can cause T-cell lymphomas in chicken. Long noncoding RNA (lncRNA) is strongly associated with various cancers and many other diseases. In chickens,...

    Authors: Zhen You, Qinghe Zhang, Changjun Liu, Jiuzhou Song, Ning Yang and Ling Lian

    Citation: BMC Genomics 2019 20:245

    Content type: Research article

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  21. Lactation and associated metabolic stresses during the post-partum period have been shown to impair fertility in dairy cows. The oviduct plays key roles in embryo development and the establishment of pregnancy...

    Authors: Yann Locatelli, Niamh Forde, Helmut Blum, Alexander Graf, Benoît Piégu, Pascal Mermillod, Eckhard Wolf, Patrick Lonergan and Marie Saint-Dizier

    Citation: BMC Genomics 2019 20:233

    Content type: Research article

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  22. Monogenean flatworms are the main fish ectoparasites inflicting serious economic losses in aquaculture. The polyopisthocotylean Sparicotyle chrysophrii parasitizes the gills of gilthead sea bream (GSB, Sparus aur...

    Authors: M. Carla Piazzon, Ivona Mladineo, Fernando Naya-Català, Ron P. Dirks, Susanne Jong-Raadsen, Anamarija Vrbatović, Jerko Hrabar, Jaume Pérez-Sánchez and Ariadna Sitjà-Bobadilla

    Citation: BMC Genomics 2019 20:200

    Content type: Research article

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  23. Copy number variations (CNVs) are structural variants consisting of large-scale insertions and deletions of genomic fragments. Exploring CNVs and estimating their effects on phenotypes are useful for genome se...

    Authors: Mei Liu, Lingzhao Fang, Shuli Liu, Michael G. Pan, Eyal Seroussi, John B. Cole, Li Ma, Hong Chen and George E. Liu

    Citation: BMC Genomics 2019 20:181

    Content type: Research article

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  24. The power of genome-wide association studies (GWAS) is often limited by the sample size available for the analysis. Milk fatty acid (FA) traits are scarcely recorded due to expensive and time-consuming analyti...

    Authors: G. Gebreyesus, A. J. Buitenhuis, N. A. Poulsen, M. H. P. W. Visker, Q. Zhang, H. J. F. van Valenberg, D. Sun and H. Bovenhuis

    Citation: BMC Genomics 2019 20:178

    Content type: Research article

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  25. With the unprecedented rapid growth rate (up to 2.75 cm/day), velvet antler is an invaluable model for the identification of potent growth factors and signaling networks for extremely fast growing tissues, mai...

    Authors: Hengxing Ba, Datao Wang, Tung On Yau, Yudong Shang and Chunyi Li

    Citation: BMC Genomics 2019 20:173

    Content type: Research article

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  26. Intramuscular fat (IMF) content and composition have a strong impact on the nutritional and organoleptic properties of porcine meat. The goal of the current work was to compare the patterns of gene expression ...

    Authors: Rayner González-Prendes, Raquel Quintanilla, Emilio Mármol-Sánchez, Ramona N. Pena, Maria Ballester, Tainã Figueiredo Cardoso, Arianna Manunza, Joaquim Casellas, Ángela Cánovas, Isabel Díaz, José Luis Noguera, Anna Castelló, Anna Mercadé and Marcel Amills

    Citation: BMC Genomics 2019 20:170

    Content type: Research article

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  27. Korean Hanwoo cattle are known for their high meat quality, especially their high intramuscular fat compared to most other cattle breeds. Different muscles have very different meat quality traits and a study o...

    Authors: Sara de las Heras-Saldana, Ki Yong Chung, Seung Hwan Lee and Cedric Gondro

    Citation: BMC Genomics 2019 20:156

    Content type: Research article

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  28. Meat quality related phenotypes are difficult and expensive to measure and predict but are ideal candidates for genomic selection if genetic markers that account for a worthwhile proportion of the phenotypic v...

    Authors: Joel D. Leal-Gutiérrez, Mauricio A. Elzo, D. Dwain Johnson, Heather Hamblen and Raluca G. Mateescu

    Citation: BMC Genomics 2019 20:151

    Content type: Research article

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  29. Genome-wide association studies (GWAS) are utilized in cattle to identify regions or genetic variants associated with phenotypes of interest, and thus, to identify design strategies that allow for the increase...

    Authors: Luis Orlando Duitama Carreño, Matilde da Conceição Pessoa, Rafael Espigolan, Luciana Takada, Tiago Bresolin, Ligia Cavani, Fernando Baldi, Roberto Carvalheiro, Lucia Galvão de Albuquerque and Ricardo da Fonseca

    Citation: BMC Genomics 2019 20:150

    Content type: Research article

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  30. Hair fibre length is an important economic trait of rabbits in fur production. However, molecular mechanisms regulating rabbit hair growth have remained elusive.

    Authors: Haisheng Ding, Huiling Zhao, Guanglong Cheng, Yongxin Yang, Xiaofei Wang, Xiaowei Zhao, Yunxia Qi and Dongwei Huang

    Citation: BMC Genomics 2019 20:140

    Content type: Research article

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  31. A key developmental transformation in the life of all vertebrates is the transition to sexual maturity, whereby individuals are capable of reproducing for the first time. In the farming of Atlantic salmon, ear...

    Authors: Amin R. Mohamed, Klara L. Verbyla, Hawlader A. Al-Mamun, Sean McWilliam, Bradley Evans, Harry King, Peter Kube and James W. Kijas

    Citation: BMC Genomics 2019 20:139

    Content type: Research article

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  32. Horses have been strongly selected for speed, strength, and endurance-exercise traits since the onset of domestication. As a result, highly specialized horse breeds have developed with many modern horse breeds...

    Authors: Brandon D. Velie, Mette Lillie, Kim Jäderkvist Fegraeus, Maria K. Rosengren, Marina Solé, Maja Wiklund, Carl-Fredrik Ihler, Eric Strand and Gabriella Lindgren

    Citation: BMC Genomics 2019 20:104

    Content type: Research article

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  33. Circular RNA (circRNA) is a type of noncoding RNA involved in a variety of biological processes, especially in post-transcriptional regulation. The granulosa cells of follicles play a determining role in ovari...

    Authors: Manman Shen, Tingting Li, Genxi Zhang, Pengfei Wu, Fuxiang Chen, Qiuhong Lou, Lan Chen, Xuemei Yin, Tao Zhang and Jinyu Wang

    Citation: BMC Genomics 2019 20:96

    Content type: Research article

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  34. Eggshell formation takes place in the shell gland of the oviduct of laying hens. The eggshell is rich in calcium and various glycoproteins synthesised in the shell gland. Although studies have identified genes...

    Authors: Samiullah Khan, Shu-Biao Wu and Juliet Roberts

    Citation: BMC Genomics 2019 20:89

    Content type: Research article

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  35. Restriction site-associated DNA sequencing (RADseq) has revolutionized the study of wild organisms by allowing cost-effective genotyping of thousands of loci. However, for species lacking reference genomes, it...

    Authors: David L. J. Vendrami, Jaume Forcada and Joseph I. Hoffman

    Citation: BMC Genomics 2019 20:72

    Content type: Research article

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  36. MicroRNAs (miRNAs) are short endogenous, single-stranded, noncoding small RNA molecules of approximately 22 nucleotides in length. They regulate gene expression posttranscriptionally by silencing mRNA expressi...

    Authors: Martin Bilbao-Arribas, Naiara Abendaño, Endika Varela-Martínez, Ramsés Reina, Damián de Andrés and Begoña M. Jugo

    Citation: BMC Genomics 2019 20:62

    Content type: Research article

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  37. The mechanism of latency and the ability of the cyprinid herpesvirus 3 (CyHV-3) to establish life-long infections in carp remains poorly understood. To explain the role of miRNAs in this process we applied a r...

    Authors: Michal Reichert, Anna Lukasik, Piotr Zielenkiewicz, Marek Matras, Joanna Maj-Paluch, Magdalena Stachnik and Ewa Borzym

    Citation: BMC Genomics 2019 20:46

    Content type: Research article

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  38. Long non-coding RNAs (lncRNAs) are important component of mammalian genomes, where their numbers are even larger than that of protein-coding genes. For example, human (Homo sapiens) (96,308 vs. 20,376) and mouse

    Authors: Chang Lu, Yanling Xing, Han Cai, Yirong Shi, Jinhua Liu and Yinhua Huang

    Citation: BMC Genomics 2019 20:36

    Content type: Research article

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  39. Positively correlated with carcass weight and animal growth, the ribeye area (REA) and the backfat thickness (BFT) are economic important carcass traits, which impact directly on producer’s payment. The select...

    Authors: Bárbara Silva-Vignato, Luiz L. Coutinho, Mirele D. Poleti, Aline S. M. Cesar, Cristina T. Moncau, Luciana C. A. Regitano and Júlio C. C. Balieiro

    Citation: BMC Genomics 2019 20:32

    Content type: Research article

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  40. Average daily gain (ADG) is an important trait that contributes to the production efficiency and economic benefits in the beef cattle industry. The molecular mechanisms of ADG have not yet been fully explored ...

    Authors: Lingyang Xu, Liu Yang, Lei Wang, Bo Zhu, Yan Chen, Huijiang Gao, Xue Gao, Lupei Zhang, George E. Liu and Junya Li

    Citation: BMC Genomics 2019 20:31

    Content type: Research article

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  41. A widely used approach in next-generation sequencing projects is the alignment of reads to a reference genome. Despite methodological and hardware improvements which have enhanced the efficiency and accuracy o...

    Authors: Veronika N. Laine, Toni I. Gossmann, Kees van Oers, Marcel E. Visser and Martien A. M. Groenen

    Citation: BMC Genomics 2019 20:19

    Content type: Research article

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  42. Duck species are known to have different susceptibility to fatty liver production in response to overfeeding. In order to better describe mechanisms involved in the development of hepatic steatosis and differe...

    Authors: Frédéric Hérault, Magalie Houée-Bigot, Elisabeth Baéza, Olivier Bouchez, Diane Esquerré, Christophe Klopp and Christian Diot

    Citation: BMC Genomics 2019 20:13

    Content type: Research article

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  43. Ruminants play a great role in sustainable livestock since they transform pastures, silage, and crop residues into high-quality human food (i.e. milk and beef). Animals with better ability to convert food into...

    Authors: Francisco José Novais, Pedro Ratto Lisboa Pires, Pâmela Almeida Alexandre, Robert A Dromms, Amadeu Hoshi Iglesias, José Bento Sterman Ferraz, Mark Philip-Walter Styczynski and Heidge Fukumasu

    Citation: BMC Genomics 2019 20:8

    Content type: Research article

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  44. Economically important growth and meat quality traits in pigs are controlled by cascading molecular events occurring during development and continuing throughout the conversion of muscle to meat. However, litt...

    Authors: Deborah Velez-Irizarry, Sebastian Casiro, Kaitlyn R. Daza, Ronald O. Bates, Nancy E. Raney, Juan P. Steibel and Catherine W. Ernst

    Citation: BMC Genomics 2019 20:3

    Content type: Research article

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  45. The Tibetan highland fish, Gymnocypris przewalskii, migrates from Lake Qinghai to its spawning grounds every summer. This seasonal reproduction is critically regulated by intrinsic and extrinsic signals. However,...

    Authors: Fei Tian, Sijia Liu, Jianquan Shi, Hongfang Qi, Kai Zhao and Baosheng Xie

    Citation: BMC Genomics 2019 20:2

    Content type: Research article

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  46. Pekin duck products have become popular in Asia over recent decades and account for an increasing market share. However, the genetic mechanisms affecting carcass growth in Pekin ducks remain unknown. This stud...

    Authors: Meng-Ting Deng, Feng Zhu, Yu-Ze Yang, Fang-Xi Yang, Jin-ping Hao, Si-Rui Chen and Zhuo-Cheng Hou

    Citation: BMC Genomics 2019 20:1

    Content type: Research article

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  47. Paratuberculosis is a contagious, chronic and enteric disease in ruminants, which is caused by Mycobacterium avium subspecies paratuberculosis (MAP) infection, resulting in enormous economic losses worldwide. The...

    Authors: Yahui Gao, Jianping Jiang, Shaohua Yang, Jie Cao, Bo Han, Yachun Wang, Yi Zhang, Ying Yu, Shengli Zhang, Qin Zhang, Lingzhao Fang, Bonnie Cantrell and Dongxiao Sun

    Citation: BMC Genomics 2018 19:972

    Content type: Research article

    Published on:

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The editors of BMC Genomics support initiatives that expedite the peer review process and are happy to consider manuscripts that have been reviewed in Peerage of Science. Please indicate in your cover letter if this applies to your manuscript.

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