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  1. Content type: Research article

    Genomic selection (GS) can increase genetic gain by reducing the length of breeding cycle in forest trees. Here we genotyped 1370 control-pollinated progeny trees from 128 full-sib families in Norway spruce (Pice...

    Authors: Zhi-Qiang Chen, John Baison, Jin Pan, Bo Karlsson, Bengt Andersson, Johan Westin, María Rosario García-Gil and Harry X. Wu

    Citation: BMC Genomics 2018 19:946

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  2. Content type: Research article

    Dissecting the genetic basis of phenotypic diversity is one of the fundamental goals in evolutionary biology. Despite growing evidence for gene expression divergence being responsible for the evolution of comp...

    Authors: Sri Pratima Nandamuri, Matthew A. Conte and Karen L. Carleton

    Citation: BMC Genomics 2018 19:945

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  3. Content type: Research article

    Norway spruce [Picea abies (L.) Karst.] is ecologically and economically one of the most important conifer worldwide. Our main goal was to develop a large catalog of annotated high confidence gene SNPs that shoul...

    Authors: Aïda Azaiez, Nathalie Pavy, Sébastien Gérardi, Jérôme Laroche, Brian Boyle, France Gagnon, Marie-Josée Mottet, Jean Beaulieu and Jean Bousquet

    Citation: BMC Genomics 2018 19:942

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  4. Content type: Software

    Democratising the growing body of whole genome sequencing data available for Triticum aestivum (bread wheat) has been impeded by the lack of a genome reference and the large computational requirements for analysi...

    Authors: Nathan S. Watson-Haigh, Radosław Suchecki, Elena Kalashyan, Melissa Garcia and Ute Baumann

    Citation: BMC Genomics 2018 19:941

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  5. Content type: Research article

    Phosphorus is an important macronutrient that is severely lacking in soils. In plants, specific microRNAs (miRNAs) essential for nutrient management and the regulation of stress responses are responsible for t...

    Authors: Amanda Huen, Julia Bally and Penelope Smith

    Citation: BMC Genomics 2018 19:940

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  6. Content type: Research article

    Unlike the chromosome constitution of most snakes (2n=36), the cobra karyotype shows a diploid chromosome number of 38 with a highly heterochromatic W chromosome and a large morphologically different chromosom...

    Authors: Worapong Singchat, Rebecca E. O’Connor, Panupong Tawichasri, Aorarat Suntronpong, Siwapech Sillapaprayoon, Sunutcha Suntrarachun, Narongrit Muangmai, Sudarath Baicharoen, Surin Peyachoknagul, Lawan Chanhome, Darren Griffin and Kornsorn Srikulnath

    Citation: BMC Genomics 2018 19:939

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  7. Content type: Research article

    Peanut is the world’s fourth largest oilseed crop that exhibits wide cultivar variations in cadmium (Cd) accumulation. To establish the mechanisms of Cd distribution and accumulation in peanut plants, eight cD...

    Authors: Rugang Yu, Yuanyuan Ma, Yue Li, Xin Li, Caifeng Liu, Xueling Du and Gangrong Shi

    Citation: BMC Genomics 2018 19:938

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  8. Content type: Research article

    Nicotiana attenuata is an ecological model plant whose 2.57 Gb genome has recently been sequenced and assembled and for which miRNAs and their genomic locations have been identified. To understand how this plant’...

    Authors: Priyanka Pandey, Ming Wang, Ian T. Baldwin, Shree P. Pandey and Karin Groten

    Citation: BMC Genomics 2018 19:937

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  9. Content type: Research article

    Trichophyton rubrum (T. rubrum) is an important model organism of dermatophytes, which are the most common fungal pathogens worldwide. Despite the severity and prevalence of the infection caused by these pathogen...

    Authors: Lingling Wang, Xingye Xu, Jian Yang, Lihong Chen, Bo Liu, Tao Liu and Qi Jin

    Citation: BMC Genomics 2018 19:933

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  10. Content type: Research article

    Regulatory circuits of infection in the emerging experimental model system, water flea Daphnia and their microparasites, remain largely unknown. Here we provide the first molecular insights into the response of D...

    Authors: Yameng Lu, Paul R. Johnston, Stuart R. Dennis, Michael T. Monaghan, Uwe John, Piet Spaak and Justyna Wolinska

    Citation: BMC Genomics 2018 19:932

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  11. Content type: Research article

    Faecalibacterium prausnitzii is a ubiquitous member of the human gut microbiome, constituting up to 15% of the total bacteria in the human gut. Substantial evidence connects decreased levels of F. prausnitzii wit...

    Authors: Cormac Brian Fitzgerald, Andrey N. Shkoporov, Thomas D. S. Sutton, Andrei V. Chaplin, Vimalkumar Velayudhan, R. Paul Ross and Colin Hill

    Citation: BMC Genomics 2018 19:931

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  12. Content type: Research article

    Vaccinium uliginosum (Ericaceae) is an important wild berry having high economic value. The white-fruited V. uliginosum variety found in the wild lacks anthocyanin and bears silvery white fruits. Hence, it is a g...

    Authors: Yang Yang, Baihui Cui, Zhiwen Tan, Bingxue Song, Hounan Cao and Chengwen Zong

    Citation: BMC Genomics 2018 19:930

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  13. Content type: Research article

    The sustainability of poultry farming relies on the development of more efficient and autonomous production systems in terms of feed supply. This implies a better integration of adaptive traits in breeding pro...

    Authors: Amélie Juanchich, Christelle Hennequet-Antier, Cédric Cabau, Elisabeth Le Bihan-Duval, Michel J. Duclos, Sandrine Mignon-Grasteau and Agnès Narcy

    Citation: BMC Genomics 2018 19:928

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  14. Content type: Research article

    A number of Pyricularia species are known to infect different grass species. In the case of Pyricularia oryzae (syn. Magnaporthe oryzae), distinct populations are known to be adapted to a wide variety of grass ho...

    Authors: Huakun Zheng, Zhenhui Zhong, Mingyue Shi, Limei Zhang, Lianyu Lin, Yonghe Hong, Tian Fang, Yangyan Zhu, Jiayuan Guo, Limin Zhang, Jie Fang, Hui Lin, Justice Norvienyeku, Xiaofeng Chen, Guodong Lu, Hongli Hu…

    Citation: BMC Genomics 2018 19:927

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  15. Content type: Research article

    The molecular mechanisms underlying stress-influenced immune function of chicken (Gallus Gallus) are not clear. The stress models can be established effectively by feeding chickens corticosterone (CORT) hormone. ...

    Authors: Yanhua Zhang, Yanting Zhou, Guirong Sun, Kui Li, Zhuanjian Li, Aru Su, Xiaojun Liu, Guoxi Li, Ruirui Jiang, Ruili Han, Yadong Tian, Xiangtao Kang and Fengbin Yan

    Citation: BMC Genomics 2018 19:918

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  16. Content type: Research article

    The transcriptional profiles of mammals during brain development and ageing have been characterized. However the global expression patterns of transcriptome in the chicken brain have not been explored. Here, w...

    Authors: Zhongxian Xu, Tiandong Che, Feng Li, Kai Tian, Qing Zhu, Shailendra Kumar Mishra, Yifei Dai, Mingzhou Li and Diyan Li

    Citation: BMC Genomics 2018 19:917

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  17. Content type: Research article

    Carotenoids are widely distributed in plants and algae, and their biosynthesis has attracted widespread interest. Carotenoid-related research has mostly focused on model species, and there is a lack of data on...

    Authors: Yuan He, Yafeng Ma, Yu Du and Songdong Shen

    Citation: BMC Genomics 2018 19:916

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  18. Content type: Research article

    The Pacific abalone, Haliotis discus hannai, is the most important cultivated abalone in China. Improving abalone muscle growth and increasing the rate of growth are important genetic improvement programs in this...

    Authors: Jianfang Huang, Xuan Luo, Miaoqin Huang, Guangmou Liu, Weiwei You and Caihuan Ke

    Citation: BMC Genomics 2018 19:915

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  19. Content type: Research article

    Quantitative trait loci (QTL) mapping provides a powerful tool to unravel the genetic bases of cotton yield and its components, as well as their heterosis. In the present study, the genetic basis underlying in...

    Authors: Cong Li, Tianlun Zhao, Hurong Yu, Cheng Li, Xiaolei Deng, Yating Dong, Fan Zhang, Yi Zhang, Lei Mei, Jinhong Chen and Shuijin Zhu

    Citation: BMC Genomics 2018 19:910

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  20. Content type: Research article

    Populus nigra is a major tree species of ecological and economic importance for which several initiatives have been set up to create genomic resources. In order to access the large number of Single Nucleotide Pol...

    Authors: Odile Rogier, Aurélien Chateigner, Souhila Amanzougarene, Marie-Claude Lesage-Descauses, Sandrine Balzergue, Véronique Brunaud, José Caius, Ludivine Soubigou-Taconnat, Véronique Jorge and Vincent Segura

    Citation: BMC Genomics 2018 19:909

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  21. Content type: Research article

    Wucai (Brassica campestris L. ssp. chinensis var. rosularis Tsen) is a variant of nonheading Chinese cabbage (Brassica campestris L.), which is one of the major vegetables in China. Cytoplasmic male sterility (CM...

    Authors: Guohu Chen, Xinyu Ye, Shengyun Zhang, Shidong Zhu, Lingyun Yuan, Jinfeng Hou and Chenggang Wang

    Citation: BMC Genomics 2018 19:908

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  22. Content type: Research article

    Swine streptococcosis has caused great economic loss in the swine industry, and the major pathogen responsible for this disease is Streptococcus Suis serotype 2 (SS2). Disease resistance breeding is a fundamental...

    Authors: Zhe Ma, Haodan Zhu, Yiqi Su, Yu Meng, Huixing Lin, Kongwang He and Hongjie Fan

    Citation: BMC Genomics 2018 19:907

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  23. Content type: Research article

    Subterranean rodents have evolved many features to adapt to their hypoxic environment. The brain is an organ that is particularly vulnerable to damage caused by exposure to hypoxic conditions. To investigate t...

    Authors: Qianqian Dong, Luye Shi, Yangwei Li, Mengwan Jiang, Hong Sun, Baishi Wang, Han Cheng, Yifeng Zhang, Tian Shao, Yuhua Shi and Zhenlong Wang

    Citation: BMC Genomics 2018 19:901

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  24. Content type: Research article

    To reduce costs of rearing replacement heifers, researchers have focused on decreasing age at breeding and first calving. To increase returns upon initiation of lactation the focus has been on increasing mamma...

    Authors: M. Vailati-Riboni, R. E. Bucktrout, S. Zhan, A. Geiger, J. C. McCann, R. M. Akers and J. J. Loor

    Citation: BMC Genomics 2018 19:900

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  25. Content type: Research article

    Comparative genomics approaches have facilitated the discovery of many novel non-coding and structured RNAs (ncRNAs). The increasing availability of related genomes now makes it possible to systematically sear...

    Authors: Rebecca Kirsch, Stefan E. Seemann, Walter L. Ruzzo, Stephen M. Cohen, Peter F. Stadler and Jan Gorodkin

    Citation: BMC Genomics 2018 19:899

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  26. Content type: Research article

    Members of the Early Salt Induced 3 (Esi3/RCI2/PMP3) gene family in plants have been shown to be induced in response to both biotic and abiotic stresses and to enhance stress tolerance in both transgenic plants a...

    Authors: Sabrina C. Brunetti, Michelle K. M. Arseneault and Patrick J. Gulick

    Citation: BMC Genomics 2018 19:898

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  27. Content type: Research

    Phytophthora infestans is a plant pathogen that causes an important plant disease known as late blight in potato plants (Solanum tuberosum) and several other solanaceous hosts. This disease is the main factor aff...

    Authors: Kelly Botero, Silvia Restrepo and Andres Pinzón

    Citation: BMC Genomics 2018 19(Suppl 8):863

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    This article is part of a Supplement: Volume 19 Supplement 8

  28. Content type: Research

    Repetitive DNA sequences (Repeats) are significant regions in the human genome that have a specific genomic distribution, structure, and several binding sites for genome architecture and function. In consequen...

    Authors: Fabian Tobar-Tosse, Patricia E. Veléz, Eliana Ocampo-Toro and Pedro A. Moreno

    Citation: BMC Genomics 2018 19(Suppl 8):862

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    This article is part of a Supplement: Volume 19 Supplement 8

  29. Content type: Research

    Modern Latin American populations were formed via genetic admixture among ancestral source populations from Africa, the Americas and Europe. We are interested in studying how combinations of genetic ancestry i...

    Authors: Emily T. Norris, Lu Wang, Andrew B. Conley, Lavanya Rishishwar, Leonardo Mariño-Ramírez, Augusto Valderrama-Aguirre and I. King Jordan

    Citation: BMC Genomics 2018 19(Suppl 8):861

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    This article is part of a Supplement: Volume 19 Supplement 8

  30. Content type: Research

    In living organisms, small heat shock proteins (sHSPs) are triggered in response to stress situations. This family of proteins is large in plants and, in the case of tomato (Solanum lycopersicum), 33 genes have b...

    Authors: Debora Arce, Flavio Spetale, Flavia Krsticevic, Paolo Cacchiarelli, Javier De Las Rivas, Sergio Ponce, Guillermo Pratta and Elizabeth Tapia

    Citation: BMC Genomics 2018 19(Suppl 8):860

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    This article is part of a Supplement: Volume 19 Supplement 8

  31. Content type: Research

    Latin America harbors some of the most biodiverse countries in the world, including Colombia. Despite the increasing use of cutting-edge technologies in genomics and bioinformatics in several biological scienc...

    Authors: Alejandra Noreña – P, Andrea González Muñoz, Jeanneth Mosquera-Rendón, Kelly Botero and Marco A. Cristancho

    Citation: BMC Genomics 2018 19(Suppl 8):859

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    This article is part of a Supplement: Volume 19 Supplement 8

  32. Content type: Research

    Hot spring bacteria have unique biological adaptations to survive the extreme conditions of these environments; these bacteria produce thermostable enzymes that can be used in biotechnological and industrial a...

    Authors: Andres Benavides, Juan Pablo Isaza, Juan Pablo Niño-García, Juan Fernando Alzate and Felipe Cabarcas

    Citation: BMC Genomics 2018 19(Suppl 8):858

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    This article is part of a Supplement: Volume 19 Supplement 8

  33. Content type: Research

    Identification of biomarkers associated with the prognosis of different cancer subtypes is critical to achieve better therapeutic assistance. In colorectal cancer (CRC) the discovery of stable and consistent s...

    Authors: Jorge Martinez-Romero, Santiago Bueno-Fortes, Manuel Martín-Merino, Ana Ramirez de Molina and Javier De Las Rivas

    Citation: BMC Genomics 2018 19(Suppl 8):857

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    This article is part of a Supplement: Volume 19 Supplement 8

  34. Content type: Research article

    Expression patterns of many laticifer-specific gens are closely correlative with rubber yield of Hevea brasiliensis (para rubber tree). To unveil the mechanisms underlying the rubber yield, transcript levels of n...

    Authors: Chuntai Wu, Li Lan, Yu Li, Zhiyi Nie and Rizhong Zeng

    Citation: BMC Genomics 2018 19:897

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  35. Content type: Research article

    The application of genomic data and bioinformatics for the identification of restricted or illegally-sourced natural products is urgently needed. The taxonomic identity and geographic provenance of raw and pro...

    Authors: Kujin Tang, Jie Ren, Richard Cronn, David L. Erickson, Brook G. Milligan, Meaghan Parker-Forney, John L. Spouge and Fengzhu Sun

    Citation: BMC Genomics 2018 19:896

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  36. Content type: Research article

    Malaria parasites are genetically polymorphic and phenotypically plastic. In studying transcriptome variation among parasites from different infections, it is challenging to overcome potentially confounding te...

    Authors: Sarah J. Tarr, Ofelia Díaz-Ingelmo, Lindsay B. Stewart, Suzanne E. Hocking, Lee Murray, Craig W. Duffy, Thomas D. Otto, Lia Chappell, Julian C. Rayner, Gordon A. Awandare and David J. Conway

    Citation: BMC Genomics 2018 19:894

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  37. Content type: Research article

    The core functions of the insulin/insulin-like signaling and target of rapamycin (IIS/TOR) pathway are nutrient sensing, energy homeostasis, growth, and regulation of stress responses. This pathway is also kno...

    Authors: Rita M. Graze, Ruei-Ying Tzeng, Tiffany S. Howard and Michelle N. Arbeitman

    Citation: BMC Genomics 2018 19:893

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  38. Content type: Research article

    Selection acts on the phenotype, yet only the genotype is inherited. While both the phenotypic and genotypic response to short-term selection can be measured, the link between these is a major unsolved problem...

    Authors: Ken Kraaijeveld, Vicencio Oostra, Maartje Liefting, Bregje Wertheim, Emile de Meijer and Jacintha Ellers

    Citation: BMC Genomics 2018 19:892

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  39. Content type: Research article

    The most common infusion in southern Latin-American countries is prepared with dried leaves of Ilex paraguariensis A. St.-Hil., an aboriginal ancestral beverage known for its high polyphenols concentration curren...

    Authors: Jessica V. Fay, Christopher J. Watkins, Ram K. Shrestha, Sergio L. Litwiñiuk, Liliana N. Talavera Stefani, Cristian A. Rojas, Carina F. Argüelles, Julian A. Ferreras, Mario Caccamo and Marcos M. Miretti

    Citation: BMC Genomics 2018 19:891

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  40. Content type: Research article

    Pectobacterium spp. are necrotrophic bacterial plant pathogens of the family Pectobacteriaceae, responsible for a wide spectrum of diseases of important crops and ornamental plants including soft rot, blackleg, a...

    Authors: Xiaoying Li, Yali Ma, Shuqing Liang, Yu Tian, Sanjun Yin, Sisi Xie and Hua Xie

    Citation: BMC Genomics 2018 19:889

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  41. Content type: Research article

    While the genetics of obesity has been well defined, the epigenetics of obesity is poorly understood. Here, we used a genome-wide approach to identify genes with differences in both DNA methylation and express...

    Authors: Madeline Rose Keleher, Rabab Zaidi, Lauren Hicks, Shyam Shah, Xiaoyun Xing, Daofeng Li, Ting Wang and James M. Cheverud

    Citation: BMC Genomics 2018 19:888

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  42. Content type: Research article

    Many large-effect quantitative trait loci (QTLs) for yield and disease resistance related traits have been identified in different mapping populations of peanut (Arachis hypogaea L.) under multiple environments. ...

    Authors: Qing Lu, Hao Liu, Yanbin Hong, Haifen Li, Haiyan Liu, Xingyu Li, Shijie Wen, Guiyuan Zhou, Shaoxiong Li, Xiaoping Chen and Xuanqiang Liang

    Citation: BMC Genomics 2018 19:887

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  43. Content type: Research article

    Even though microsatellite loci frequently have been isolated using recently developed next-generation sequencing (NGS) techniques, this task is still difficult because of the subsequent polymorphism screening...

    Authors: Yun Xia, Wei Luo, Siqi Yuan, Yuchi Zheng and Xiaomao Zeng

    Citation: BMC Genomics 2018 19:886

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  44. Content type: Research article

    Restriction-modification (R-M) systems protect bacteria and archaea from attacks by bacteriophages and archaeal viruses. An R-M system specifically recognizes short sites in foreign DNA and cleaves it, while s...

    Authors: I. S. Rusinov, A. S. Ershova, A. S. Karyagina, S. A. Spirin and A. V. Alexeevski

    Citation: BMC Genomics 2018 19:885

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  45. Content type: Research article

    In upland cotton (Gossypium hirsutum L.), genotypes with the same mature fiber length (FL) might possess different genes and exhibit differential expression of genes related to fiber elongation at different fiber...

    Authors: Jianjiang Ma, Yanhui Geng, Wenfeng Pei, Man Wu, Xingli Li, Guoyuan Liu, Dan Li, Qifeng Ma, XinShan Zang, Shuxun Yu, Jinfa Zhang and Jiwen Yu

    Citation: BMC Genomics 2018 19:882

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