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  1. Content type: Research article

    Ensifer alkalisoli YIC4027, a recently characterized nitrogen-fixing bacterium of the genus Ensifer, has been isolated from root nodules of the host plant Sesbania cannabina. This plant is widely used as green ma...

    Authors: Xiaoxiao Dang, Zhihong Xie, Wei Liu, Yu Sun, Xiaolin Liu, Yongqiang Zhu and Christian Staehelin

    Citation: BMC Genomics 2019 20:643

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  2. Content type: Research article

    The candidate genus “Methylacidiphilum” comprises thermoacidophilic aerobic methane oxidizers belonging to the Verrucomicrobia phylum. These are the first described non-proteobacterial aerobic methane oxidizer...

    Authors: Thomas Kruse, Chandini Murarilal Ratnadevi, Helge-André Erikstad and Nils-Kåre Birkeland

    Citation: BMC Genomics 2019 20:642

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  3. Content type: Methodology article

    Although the Y chromosome plays an important role in male sex determination and fertility, it is currently understudied due to its haploid and repetitive nature. Methods to isolate Y-specific contigs from a wh...

    Authors: Samarth Rangavittal, Natasha Stopa, Marta Tomaszkiewicz, Kristoffer Sahlin, Kateryna D. Makova and Paul Medvedev

    Citation: BMC Genomics 2019 20:641

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  4. Content type: Research article

    As one of the most important food crops in the world, increasing wheat (Triticum aestivum L.) yield is an urgent task for global food security under the continuous threat of stripe rust (caused by Puccinia striif...

    Authors: Xueling Ye, Jian Li, Yukun Cheng, Fangjie Yao, Li Long, Yuqi Wang, Yu Wu, Jing Li, Jirui Wang, Qiantao Jiang, Houyang Kang, Wei Li, Pengfei Qi, Xiujin Lan, Jian Ma, Yaxi Liu…

    Citation: BMC Genomics 2019 20:640

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  5. Content type: Research article

    The Pacific oyster Crassostrea gigas is an important fishery resource that is sensitive to temperature fluctuations. Thus, it has evolved a protection mechanism against heat stress by increasing the expression of...

    Authors: Youli Liu, Li Li, Baoyu Huang, Wei Wang and Guofan Zhang

    Citation: BMC Genomics 2019 20:639

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  6. Content type: Methodology article

    The detection of protein complexes is of great significance for researching mechanisms underlying complex diseases and developing new drugs. Thus, various computational algorithms have been proposed for protei...

    Authors: Rongquan Wang, Caixia Wang, Liyan Sun and Guixia Liu

    Citation: BMC Genomics 2019 20:637

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  7. Content type: Research article

    Transition to flowering at the right time is critical for local adaptation and to maximize grain yield in crops. Canola is an important oilseed crop with extensive variation in flowering time among varieties. ...

    Authors: Harsh Raman, Rosy Raman, Yu Qiu, Avilash Singh Yadav, Sridevi Sureshkumar, Lauren Borg, Maheswaran Rohan, David Wheeler, Oliver Owen, Ian Menz and Sureshkumar Balasubramanian

    Citation: BMC Genomics 2019 20:636

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  8. Content type: Research article

    As one of the most important transcription factor families, GRAS proteins are involved in numerous regulatory processes, especially plant growth and development. However, they have not been systematically anal...

    Authors: Xin Niu, Shoukun Chen, Jiawei Li, Yue Liu, Wanquan Ji and Haifeng Li

    Citation: BMC Genomics 2019 20:635

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  9. Content type: Methodology article

    The effective use of mutant populations for reverse genetic screens relies on the population-wide characterization of the induced mutations. Genome- and population-wide characterization of the mutations found ...

    Authors: Marc-André Lemay, Davoud Torkamaneh, Guillem Rigaill, Brian Boyle, Adrian O. Stec, Robert M. Stupar and François Belzile

    Citation: BMC Genomics 2019 20:634

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  10. Content type: Research article

    Improving the yield and fiber quality of upland cotton is a goal of plant breeders. However, increasing the yield and quality of cotton fibers is becoming more urgent. While the growing human population needs ...

    Authors: Yuan Qin, Huiru Sun, Pengbo Hao, Hantao Wang, Congcong Wang, Liang Ma, Hengling Wei and Shuxun Yu

    Citation: BMC Genomics 2019 20:633

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  11. Content type: Research article

    Gypenosides are a group of triterpene saponins from Gynostemma pentaphyllum that are the same as or very similar to ginsenosides from the Panax species. Several enzymes involved in ginsenoside biosynthesis have b...

    Authors: Tongtong Liang, Liqiu Zou, Sijie Sun, Xuejun Kuang, Jianhe Wei, Lizhi Wang, Ying Li and Chao Sun

    Citation: BMC Genomics 2019 20:632

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  12. Content type: Research article

    Cell contain diverse array of proteins with different molecular weight and isoelectric point (pI). The molecular weight and pI of protein play important role in determining the molecular biochemical function. ...

    Authors: Tapan Kumar Mohanta, Abdullatif Khan, Abeer Hashem, Elsayed Fathi Abd_Allah and Ahmed Al-Harrasi

    Citation: BMC Genomics 2019 20:631

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  13. Content type: Research article

    Herbaspirillum seropedicae is an environmental β-proteobacterium that is capable of promoting the growth of economically relevant plants through biological nitrogen fixation and phytohormone production. However, ...

    Authors: Helisson Faoro, Willian K. Oliveira, Vinicius A. Weiss, Michelle Z. Tadra-Sfeir, Rodrigo L. Cardoso, Eduardo Balsanelli, Liziane C. C. Brusamarello-Santos, Doumit Camilios-Neto, Leonardo M. Cruz, Roberto T. Raittz, Ana C. Q. Marques, John LiPuma, Cyntia M. T. Fadel-Picheth, Emanuel M. Souza and Fabio O. Pedrosa

    Citation: BMC Genomics 2019 20:630

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  14. Content type: Research article

    Free asparagine is the precursor for acrylamide formation during cooking and processing of grains, tubers, beans and other crop products. In wheat grain, free asparagine, free glutamine and total free amino ac...

    Authors: Tanya Y. Curtis, Sarah Raffan, Yongfang Wan, Robert King, Asier Gonzalez-Uriarte and Nigel G. Halford

    Citation: BMC Genomics 2019 20:628

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  15. Content type: Correction

    Following publication of the original article [1], the authors reported a number of errors, which are listed in this Correction article. The corrections are marked in bold.

    Authors: Abdul Fatah A. Samad, Reyhaneh Rahnamaie-Tajadod, Muhammad Sajad, Jaeyres Jani, Abdul Munir Abdul Murad, Normah Mohd Noor and Ismanizan Ismail

    Citation: BMC Genomics 2019 20:627

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    The original article was published in BMC Genomics 2019 20:586

  16. Content type: Correction

    Following publication of the original article [1], the authors reported an error in one of the authors’ names. In this Correction the incorrect and correct author name are shown. The original publication of th...

    Authors: Yanling Zhao, Xiaoli Lu, Zhipeng Cheng, Mengfang Tian, Yangzong Qiangba, Qiang Fu and Zili Ren

    Citation: BMC Genomics 2019 20:626

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    The original article was published in BMC Genomics 2019 20:569

  17. Content type: Research article

    Oyster is rich in glycogen and free amino acids and is called “the milk of sea”. To understand the main genetic effects of these traits and the genetic networks underlying their correlation, we have conducted ...

    Authors: Jie Meng, Kai Song, Chunyan Li, Sheng Liu, Ruihui Shi, Busu Li, Ting Wang, Ao Li, Huayong Que, Li Li and Guofan Zhang

    Citation: BMC Genomics 2019 20:625

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  18. Content type: Research article

    Low temperature restricts the planting range of all crops, but cold acclimation induces adaption to cold stress in many plants. Camellia sinensis, a perennial evergreen tree that is the source of tea, is mainly g...

    Authors: Yeyun Li, Xuewen Wang, Qiuyan Ban, Xiangxiang Zhu, Changjun Jiang, Chaoling Wei and Jeffrey L. Bennetzen

    Citation: BMC Genomics 2019 20:624

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  19. Content type: Research article

    Epigenetic changes such as cytosine (CpG) DNA methylations regulate gene expression patterns in response to environmental cues including infections. Microbial infections induce DNA methylations that play a pot...

    Authors: Basavaraj Sajjanar, Nares Trakooljul, Klaus Wimmers and Siriluck Ponsuksili

    Citation: BMC Genomics 2019 20:623

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  20. Content type: Research article

    Genetic polymorphisms are known to influence milk production and composition. However, the genomic mechanisms involved in the genetic regulation of milk component synthesis are not completely understood. Micro...

    Authors: P. A. Billa, Y. Faulconnier, T. Ye, M. Chervet, F. Le Provost, J. A. A. Pires and C. Leroux

    Citation: BMC Genomics 2019 20:621

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  21. Content type: Research article

    The regenerative ability of severed axons in the central nervous system is limited in mammals. However, after central nervous system injury, neural function is partially recovered by the formation of a compens...

    Authors: Hiroshi Tsujioka and Toshihide Yamashita

    Citation: BMC Genomics 2019 20:619

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  22. Content type: Research article

    Mithun (Bos frontalis), also called gayal, is an endangered bovine species, under the tribe bovini with 2n = 58 XX chromosome complements and reared under the tropical rain forests region of India, China, Myanmar...

    Authors: Sabyasachi Mukherjee, Zexi Cai, Anupama Mukherjee, Imsusosang Longkumer, Moonmoon Mech, Kezhavituo Vupru, Kobu Khate, Chandan Rajkhowa, Abhijit Mitra, Bernt Guldbrandtsen, Mogens Sandø Lund and Goutam Sahana

    Citation: BMC Genomics 2019 20:617

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  23. Content type: Research article

    The horn fly (Haematobia irritans) is an obligate blood feeder that causes considerable economic losses in livestock industries worldwide. The control of this cattle pest is mainly based on insecticides; unfortun...

    Authors: J. M. Ribeiro, Humberto Julio Debat, M. Boiani, X. Ures, S. Rocha and M. Breijo

    Citation: BMC Genomics 2019 20:616

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  24. Content type: Research article

    Heavy metal ATPases (HMAs) are responsible for Cd translocation and play a primary role in Cd detoxification in various plant species. However, the characteristics of HMAs and the regulatory mechanisms between...

    Authors: Min Zhou, Shigang Zheng, Rong Liu, Lu Lu, Chihong Zhang, Lei Zhang, Levi Yant and Yu Wu

    Citation: BMC Genomics 2019 20:615

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  25. Content type: Methodology article

    Deciphering the 3D structure of the genome is essential for elucidating the regulatory mechanisms of gene expression in detail. Existing methods, such as chromosome conformation capture (3C) and Hi-C have enab...

    Authors: Takashi Shimbo, Machika Kawamura, Edward Wijaya, Eiichi Takaki, Yasufumi Kaneda and Katsuto Tamai

    Citation: BMC Genomics 2019 20:614

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  26. Content type: Research article

    Histone deacetylases (HDACs) are the proteins responsible for removing the acetyl group from lysine residues of core histones in chromosomes, a crucial component of gene regulation. Eleven known HDACs exist in...

    Authors: Toni A. Boltz, Sawsan Khuri and Stefan Wuchty

    Citation: BMC Genomics 2019 20:613

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  27. Content type: Research article

    Esophageal squamous cell carcinoma (ESCC) cells are heterogeneous, easily develop radioresistance, and recur. Single-cell RNA-seq (scRNA-seq) is a next-generation sequencing method that can delineate diverse g...

    Authors: Ling Yang, Xiaoyan Zhang, Qiang Hou, Ming Huang, Hongfang Zhang, Zhenzhen Jiang, Jing Yue and Shixiu Wu

    Citation: BMC Genomics 2019 20:611

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  28. Content type: Research article

    Plants encounter pathogenic and non-pathogenic microorganisms on a nearly constant basis. Small RNAs such as siRNAs and miRNAs/milRNAs influence pathogen virulence and host defense responses. We exploited the ...

    Authors: Matt Hunt, Sagnik Banerjee, Priyanka Surana, Meiling Liu, Greg Fuerst, Sandra Mathioni, Blake C. Meyers, Dan Nettleton and Roger P. Wise

    Citation: BMC Genomics 2019 20:610

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    The Correction to this article has been published in BMC Genomics 2019 20:697

  29. Content type: Methodology article

    Reporter methods to quantitatively measure the efficiency and specificity of genome editing tools are important for the development of novel editing techniques and successful applications of available ones. Ho...

    Authors: Akhilesh Kumar, Michael D. Birnbaum, Balaji T. Moorthy, Jayanti Singh, Anna Palovcak, Devang M. Patel and Fangliang Zhang

    Citation: BMC Genomics 2019 20:609

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  30. Content type: Research article

    Cytoplasmic incompatibility (CI) is the most common phenotype induced by endosymbiont Wolbachia and results in embryonic lethality when Wolbachia-modified sperm fertilize eggs without Wolbachia. However, eggs car...

    Authors: Zhen He, Ya Zheng, Wen-Juan Yu, Yang Fang, Bin Mao and Yu-Feng Wang

    Citation: BMC Genomics 2019 20:608

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  31. Content type: Research article

    Tardigrades are renowned for their ability to enter cryptobiosis (latent life) and endure extreme stress, including desiccation and freezing. Increased focus is on revealing molecular mechanisms underlying thi...

    Authors: Maria Kamilari, Aslak Jørgensen, Morten Schiøtt and Nadja Møbjerg

    Citation: BMC Genomics 2019 20:607

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  32. Content type: Research article

    Quercetin is a polyphenol of great interest given its antioxidant activity and involvement in the immune response. Although quercetin has been well studied at the molecular level as a gene regulator and an act...

    Authors: Dana Atrahimovich, Avraham O. Samson, Yifthah Barsheshet, Jacob Vaya, Soliman Khatib and Eli Reuveni

    Citation: BMC Genomics 2019 20:606

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  33. Content type: Research article

    Lichens, encompassing 20,000 known species, are symbioses between specialized fungi (mycobionts), mostly ascomycetes, and unicellular green algae or cyanobacteria (photobionts). Here we describe the first para...

    Authors: Daniele Armaleo, Olaf Müller, François Lutzoni, Ólafur S. Andrésson, Guillaume Blanc, Helge B. Bode, Frank R. Collart, Francesco Dal Grande, Fred Dietrich, Igor V. Grigoriev, Suzanne Joneson, Alan Kuo, Peter E. Larsen, John M. Logsdon Jr, David Lopez, Francis Martin…

    Citation: BMC Genomics 2019 20:605

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  34. Content type: Research article

    RNA-Seq data is inherently nonuniform for different transcripts because of differences in gene expression. This makes it challenging to decide how much data should be generated from each sample. How much shoul...

    Authors: Jordan Patterson, Eric J. Carpenter, Zhenzhen Zhu, Dan An, Xinming Liang, Chunyu Geng, Radoje Drmanac and Gane Ka-Shu Wong

    Citation: BMC Genomics 2019 20:604

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  35. Content type: Research article

    A thorough verification of the ability of genomic selection (GS) to predict estimated breeding values for pea (Pisum sativum L.) grain yield is pending. Prediction for different environments (inter-environment pr...

    Authors: Paolo Annicchiarico, Nelson Nazzicari, Luciano Pecetti, Massimo Romani and Luigi Russi

    Citation: BMC Genomics 2019 20:603

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  36. Content type: Research article

    As an important nosocomial pathogen, Enterococcus faecium has received increasing attention in recent years. However, a large number of studies have focused on the hospital-associated isolates and ignored isolate...

    Authors: Zhi Zhong, Lai-Yu Kwok, Qiangchuan Hou, Yaru Sun, Weicheng Li, Heping Zhang and Zhihong Sun

    Citation: BMC Genomics 2019 20:602

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  37. Content type: Research article

    Long intergenic non-coding RNAs (lincRNAs) can act as regulators of expression of protein-coding genes. Trans-natural antisense transcripts (trans-NATs) are a type of lincRNAs that contain sequence complementary ...

    Authors: Jules Deforges, Rodrigo S. Reis, Philippe Jacquet, Dominique Jacques Vuarambon and Yves Poirier

    Citation: BMC Genomics 2019 20:601

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  38. Content type: Research article

    Gerbera hybrida is one of the most popular cut flowers in the world; however, stem bending, which always happens when gerbera flower harvested from the field, greatly limits its vase life. To date the molecular m...

    Authors: Yafei Ge, Qixian Lai, Ping Luo, Xiaojing Liu and Wen Chen

    Citation: BMC Genomics 2019 20:600

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  39. Content type: Research article

    Cotton is a leading natural fiber crop. Beyond its fiber, cottonseed is a valuable source of plant protein and oil. Due to the much higher value of cotton fiber, there is less consideration of cottonseed quali...

    Authors: Wenwen Wang, Ying Sun, Peng Yang, Xiaoyan Cai, Le Yang, Junrui Ma, Yuncan Ou, Tianpeng Liu, Iftikhar Ali, Dajun Liu, Jian Zhang, Zhonghua Teng, Kai Guo, Dexin Liu, Fang Liu and Zhengsheng Zhang

    Citation: BMC Genomics 2019 20:599

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  40. Content type: Research article

    High-resolution genetic linkage map is critical for QTL mapping, genome sequence assembly and marker-assisted selection in aquaculture species. The ridgetail white prawn Exopalaemon carinicauda is one of the most...

    Authors: Jitao Li, Jianjian Lv, Ping Liu, Ping Chen, Jiajia Wang and Jian Li

    Citation: BMC Genomics 2019 20:598

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  41. Content type: Research article

    The impossibility of closing the life cycle of the European eel (Anguilla anguilla) in captivity troubles the future of this critically endangered species. In addition, the European eel is a highly valued and dem...

    Authors: Christoffer Rozenfeld, Víctor García-Carpintero, Luz Pérez, Victor Gallego, Juan Germán Herranz-Jusdado, Helge Tveiten, Helge K. Johnsen, Romain Fontaine, Finn-Arne Weltzien, Joaquín Cañizares, Juan F. Asturiano and David S. Peñaranda

    Citation: BMC Genomics 2019 20:597

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  42. Content type: Research article

    Root morphology is known to be affected by light quality, quantity and direction. Light signal is perceived at the shoot, translocated to roots through vasculature and further modulates the root development. P...

    Authors: Sony Kumari, Sandeep Yadav, Debadutta Patra, Sharmila Singh, Ananda K. Sarkar and Kishore C. S. Panigrahi

    Citation: BMC Genomics 2019 20:596

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  43. Content type: Research article

    Diversity-generating retroelements (DGRs) are a unique family of retroelements that generate sequence diversity of DNA to benefit their hosts by introducing variations and accelerating the evolution of target ...

    Authors: Fazhe Yan, Xuelin Yu, Zhongqu Duan, Jinyuan Lu, Ben Jia, Yuyang Qiao, Chen Sun and Chaochun Wei

    Citation: BMC Genomics 2019 20:595

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  44. Content type: Research article

    The allotetraploid tobacco species Nicotiana benthamiana native to Australia has become a popular host for recombinant protein production. Although its usage grows every year, little is known on this plant’s geno...

    Authors: Matteo Schiavinato, Richard Strasser, Lukas Mach, Juliane C. Dohm and Heinz Himmelbauer

    Citation: BMC Genomics 2019 20:594

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  45. Content type: Research article

    Anti-CD3 immunotherapy was initially approved for clinical use for renal transplantation rejection prevention. Subsequently, new generations of anti-CD3 antibodies have entered clinical trials for a broader sp...

    Authors: Isabel Garcia Sousa, Kelly Cristina Rodrigues Simi, Manuela Maragno do Almo, Maryani Andressa Gomes Bezerra, Gero Doose, Tainá Raiol, Peter F. Stadler, Steve Hoffmann, Andréa Queiroz Maranhão and Marcelo Macedo Brigido

    Citation: BMC Genomics 2019 20:593

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