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  1. 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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  2. 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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  3. 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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  4. 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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  5. 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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  6. 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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  7. 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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  8. 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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  9. 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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  10. 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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  11. 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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  12. 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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  13. 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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  14. 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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  15. Content type: Research article

    Foraging behavior in honey bees (Apis mellifera) is a complex phenotype that is regulated by physiological state and social signals. How these factors are integrated at the molecular level to modulate foraging be...

    Authors: Rong Ma, Juliana Rangel and Christina M. Grozinger

    Citation: BMC Genomics 2019 20:592

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  16. Content type: Software

    During the last decade, plant biotechnological laboratories have sparked a monumental revolution with the rapid development of next sequencing technologies at affordable prices. Soon, these sequencing technolo...

    Authors: Jose V. Die, Moamen M. Elmassry, Kimberly H. LeBlanc, Olaitan I. Awe, Allissa Dillman and Ben Busby

    Citation: BMC Genomics 2019 20:591

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  17. Content type: Research article

    Pre-slaughter stress (PSS) impairs animal welfare and meat quality. Dark, firm and dry (DFD) are terms used to designate poor quality meats induced by PSS. Protein phosphorylation can be a potentially signific...

    Authors: Ariadna Mato, Raquel Rodríguez-Vázquez, María López-Pedrouso, Susana Bravo, Daniel Franco and Carlos Zapata

    Citation: BMC Genomics 2019 20:590

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  18. Content type: Research article

    Puccinellia tenuiflora is the most saline-alkali tolerant plant in the Songnen Plain, one of the three largest soda saline-alkali lands worldwide. Here, we investigated the physicochemical properties of saline-al...

    Authors: Xiaoxue Ye, Hao Wang, Xiuling Cao, Xuejiao Jin, Fuqiang Cui, Yuanyuan Bu, Hua Liu, Wenwu Wu, Tetsuo Takano and Shenkui Liu

    Citation: BMC Genomics 2019 20:589

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  19. Content type: Research article

    Maturation of oocytes under in vitro conditions (IVM) results in impaired developmental competence compared to oocytes matured in vivo. As oocytes are closely coupled to their cumulus complex, elucidating aber...

    Authors: Jasmin Walter, Fabian Huwiler, Claudia Fortes, Jonas Grossmann, Bernd Roschitzki, Junmin Hu, Hanspeter Naegeli, Endre Laczko and Ulrich Bleul

    Citation: BMC Genomics 2019 20:588

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  20. Content type: Research article

    Atrazine is widely used in agriculture and is a known endocrine disrupting chemical. Atrazine can seep into the water body through surface, posing a potential threat to the aquatic ecological environment and h...

    Authors: Fang Wang, Qian-wen Yang, Wen-Jie Zhao, Qi-Yan Du and Zhong-Jie Chang

    Citation: BMC Genomics 2019 20:587

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  21. Content type: Research article

    Persicaria minor (kesum) is an herbaceous plant with a high level of secondary metabolite compounds, particularly terpenoids. These terpenoid compounds have well-established roles in the pharmaceutical and food i...

    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 20:586

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  22. Content type: Research

    It is nowadays clear that single base substitutions that occur in the human genome, of which some lead to pathogenic conditions, are non-random and influenced by their flanking nucleobase sequences. However, d...

    Authors: Fabrizio Pucci and Marianne Rooman

    Citation: BMC Genomics 2019 20(Suppl 8):551

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    This article is part of a Supplement: Volume 20 Supplement 8

  23. Content type: Research

    By definition, effect of synonymous single-nucleotide variants (SNVs) on protein folding and function are neutral, as they alter the codon and not the encoded amino acid. Recent examples indicate tissue-specif...

    Authors: Christine Polte, Daniel Wedemeyer, Kathryn E. Oliver, Johannes Wagner, Marcel J. C. Bijvelds, John Mahoney, Hugo R. de Jonge, Eric J. Sorscher and Zoya Ignatova

    Citation: BMC Genomics 2019 20(Suppl 8):549

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    This article is part of a Supplement: Volume 20 Supplement 8

  24. Content type: Research

    Many diseases are associated with complex patterns of symptoms and phenotypic manifestations. Parsimonious explanations aim at reconciling the multiplicity of phenotypic traits with the perturbation of one or ...

    Authors: Giulia Babbi, Pier Luigi Martelli and Rita Casadio

    Citation: BMC Genomics 2019 20(Suppl 8):548

    Published on:

    This article is part of a Supplement: Volume 20 Supplement 8

  25. Content type: Research

    Membrane proteins constitute up to 30% of the human proteome. These proteins have special properties because the transmembrane segments are embedded into lipid bilayer while extramembranous parts are in differ...

    Authors: Tommaso Orioli and Mauno Vihinen

    Citation: BMC Genomics 2019 20(Suppl 8):547

    Published on:

    This article is part of a Supplement: Volume 20 Supplement 8

  26. Content type: Research

    Short-read resequencing of genomes produces abundant information of the genetic variation of individuals. Due to their numerous nature, these variants are rarely exhaustively validated. Furthermore, low levels...

    Authors: Matthew A. Field, Gaetan Burgio, Aaron Chuah, Jalila Al Shekaili, Batool Hassan, Nashat Al Sukaiti, Simon J. Foote, Matthew C. Cook and T. Daniel Andrews

    Citation: BMC Genomics 2019 20(Suppl 8):546

    Published on:

    This article is part of a Supplement: Volume 20 Supplement 8

  27. Content type: Research

    With the continuing decrease in cost of whole genome sequencing (WGS), we have already approached the point of inflection where WGS testing has become economically feasible, facilitating broader access to the ...

    Authors: Nir Neerman, Gregory Faust, Naomi Meeks, Shira Modai, Limor Kalfon, Tzipora Falik-Zaccai and Alexander Kaplun

    Citation: BMC Genomics 2019 20(Suppl 8):545

    Published on:

    This article is part of a Supplement: Volume 20 Supplement 8

  28. Content type: Research article

    Egg quality can be defined as the egg ability to be fertilized and subsequently develop into a normal embryo. Previous research has shed light on factors that can influence egg quality. Large gaps however rema...

    Authors: Caroline T. Cheung, Thao-vi Nguyen, Aurélie Le Cam, Amélie Patinote, Laurent Journot, Christelle Reynes and Julien Bobe

    Citation: BMC Genomics 2019 20:584

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  29. Content type: Research article

    The synthetic 17α-ethinylestradiol (EE2) is a common estrogenic pollutant that has been suspected to affect the demography of river-dwelling salmonids. One possibility is that exposure to EE2 tips the balance ...

    Authors: Oliver M. Selmoni, Diane Maitre, Julien Roux, Laetitia G. E. Wilkins, Lucas Marques da Cunha, Etienne L. M. Vermeirssen, Susanne Knörr, Marc Robinson-Rechavi and Claus Wedekind

    Citation: BMC Genomics 2019 20:583

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  30. Content type: Methodology article

    The brown trout (Salmo trutta) is an economically and ecologically important species for which population genetic monitoring is frequently performed. The most commonly used genetic markers for this species are mi...

    Authors: Keoni Saint-Pé, Maeva Leitwein, Laurence Tissot, Nicolas Poulet, Bruno Guinand, Patrick Berrebi, Geoffrey Marselli, Jean-Marc Lascaux, Pierre-Alexandre Gagnaire and Simon Blanchet

    Citation: BMC Genomics 2019 20:582

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  31. Content type: Research article

    Biological adhesion (bioadhesion), enables organisms to attach to surfaces as well as to a range of other targets. Bioadhesion evolved numerous times independently and is ubiquitous throughout the kingdoms of ...

    Authors: Peter A. Davey, Marcelo Rodrigues, Jessica L. Clarke and Nick Aldred

    Citation: BMC Genomics 2019 20:581

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  32. Content type: Methodology article

    Our understanding of polyploid genomes is limited by our inability to definitively assign sequences to a specific subgenome without extensive prior knowledge like high resolution genetic maps or genome sequenc...

    Authors: Sean P. Gordon, Joshua J. Levy and John P. Vogel

    Citation: BMC Genomics 2019 20:580

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  33. Content type: Research article

    Intercellular adhesion and biofilm production by Staphylococcus aureus makes these bacteria resistant to antimicrobial therapy. Here, Methicillin-resistant Staphylococcus aureus (MRSA) strains were characterized ...

    Authors: Kifaya Azmi, Walaa Qrei and Ziad Abdeen

    Citation: BMC Genomics 2019 20:578

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  34. Content type: Research article

    Odorant receptor genes constitute the largest gene family in mammalian genomes and this family has been extensively studied in several species, but to date far less attention has been paid to the characterizat...

    Authors: Mohamed Doulazmi, Cyril Cros, Isabelle Dusart, Alain Trembleau and Caroline Dubacq

    Citation: BMC Genomics 2019 20:577

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  35. Content type: Research article

    Subfertility is one challenge facing the dairy industry as the average Holstein heifer conception rate (HCR), the proportion of heifers that conceive and maintain a pregnancy per breeding, is estimated at 55–6...

    Authors: Jennifer N. Kiser, Elizabeth M. Keuter, Christopher M. Seabury, Mahesh Neupane, Joao G. N. Moraes, Joseph Dalton, Gregory W. Burns, Thomas E. Spencer and Holly L. Neibergs

    Citation: BMC Genomics 2019 20:576

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  36. Content type: Research article

    Abscisic acid (ABA) is an important phytohormone for plant growth, development and responding to stresses such as drought, salinity, and pathogen infection. Pyrabactin Resistance 1 (PYR1)/PYR1-Like (PYL)/Regul...

    Authors: Ge Bai, He Xie, Heng Yao, Feng Li, Xuejun Chen, Yihan Zhang, Bingguan Xiao, Jun Yang, Yongping Li and Da-Hai Yang

    Citation: BMC Genomics 2019 20:575

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  37. Content type: Research article

    Starch biosynthesis in endosperm is a key process influencing grain yield and quality in maize. Although a number of starch biosynthetic genes have been well characterized, the mechanisms by which the expressi...

    Authors: Xiaocong Zhang, Sidi Xie, Jienan Han, Yu Zhou, Chang Liu, Zhiqiang Zhou, Feifei Wang, Zixiang Cheng, Junjie Zhang, Yufeng Hu, Zhuanfang Hao, Mingshun Li, Degui Zhang, Hongjun Yong, Yubi Huang, Jianfeng Weng…

    Citation: BMC Genomics 2019 20:574

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  38. Content type: Research article

    The genome of Banana bunchy top virus (BBTV) consists of at least six circular, single-stranded DNA components of ~ 1 kb in length. Some BBTV isolates may also carry satellite DNA molecules that are not essential...

    Authors: Nai-Tong Yu, Hui-Min Xie, Yu-Liang Zhang, Jian-Hua Wang, Zhongguo Xiong and Zhi-Xin Liu

    Citation: BMC Genomics 2019 20:573

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  39. Content type: Research article

    Tree peony (Paeonia suffruticosa Andrews) is a globally famous ornamental flower, with large and colorful flowers and abundant flower types. However, a relatively short and uniform flowering period hinders the ap...

    Authors: Shunli Wang, Jie Gao, Jingqi Xue, Yuqian Xue, Dandan Li, Yanren Guan and Xiuxin Zhang

    Citation: BMC Genomics 2019 20:572

    Published on:

  40. Content type: Methodology article

    RNA-Seq is currently the most widely used tool to analyze whole-transcriptome profiles. There are numerous commercial kits available to facilitate preparing RNA-Seq libraries; however, it is still not clear ho...

    Authors: Hsueh-Ping Chao, Yueping Chen, Yoko Takata, Mary W. Tomida, Kevin Lin, Jason S. Kirk, Melissa S. Simper, Carol D. Mikulec, Joyce E. Rundhaug, Susan M. Fischer, Taiping Chen, Dean G. Tang, Yue Lu and Jianjun Shen

    Citation: BMC Genomics 2019 20:571

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  41. Content type: Research

    Massively parallel reporter assays (MPRAs) enable high-throughput functional evaluation of various DNA regulatory elements and their mutant variants. The assays are based on construction of highly diverse plas...

    Authors: Evgeniya S. Omelina, Anton V. Ivankin, Anna E. Letiagina and Alexey V. Pindyurin

    Citation: BMC Genomics 2019 20(Suppl 7):536

    Published on:

    This article is part of a Supplement: Volume 20 Supplement 7

  42. Content type: Research

    Purpose of study is revealing significant differences in serum proteomes in schizophrenia and bipolar disorder (BD).

    Authors: Liudmila Smirnova, Alexander Seregin, Irina Boksha, Elena Dmitrieva, German Simutkin, Elena Kornetova, Olga Savushkina, Anastasia Letova, Nikolay Bokhan, Svetlana Ivanova and Victor Zgoda

    Citation: BMC Genomics 2019 20(Suppl 7):535

    Published on:

    This article is part of a Supplement: Volume 20 Supplement 7

  43. Content type: Research article

    Cucumber Fusarium wilt, caused by Fusarium oxysporum f. sp. cucumerinum (Foc), is one of the most notorious diseases in cucumber production. Our previous research showed the virulence of Foc significantly increas...

    Authors: Xiao-Qing Huang, Xiao-Hong Lu, Man-Hong Sun, Rong-Jun Guo, Anne D. van Diepeningen and Shi-Dong Li

    Citation: BMC Genomics 2019 20:570

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  44. Content type: Research article

    To illuminate the mechanisms underlying the high-altitude tolerance of Tibetan pig spermatozoa, proteomes of spermatozoa from Tibetan pigs raised in high and low altitudes were compared using a tandem mass tag...

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

    Citation: BMC Genomics 2019 20:569

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  45. Content type: Research article

    The bHLH (basic helix-loop-helix) transcription factor is one of the largest families of transcription factors in plants, containing a large number of members with diverse functions. Chinese jujube (Ziziphus juju...

    Authors: Hongtai Li, Weilin Gao, Chaoling Xue, Yao Zhang, Zhiguo Liu, Yu Zhang, Xianwei Meng, Mengjun Liu and Jin Zhao

    Citation: BMC Genomics 2019 20:568

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