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  1. An amendment to this paper has been published and can be accessed via the original article.

    Authors: Justine Foucher, Mylène Ruh, Anne Préveaux, Sébastien Carrère, Sandra Pelletier, Martial Briand, Rémy-Félix Serre, Marie-Agnès Jacques and Nicolas W. G. Chen
    Citation: BMC Genomics 2020 21:657
    Content type: Correction Published on:

    The original article was published in BMC Genomics 2020 21:566

  2. One of the biggest challenges in chromosome biology is to understand the occurrence and complex genetics of the extra, non-essential karyotype elements, commonly known as supernumerary or B chromosomes (Bs). T...

    Authors: Syed F. Ahmad, Maryam Jehangir, Adauto L. Cardoso, Ivan R. Wolf, Vladimir P. Margarido, Diogo C. Cabral-de-Mello, Rachel O’Neill, Guilherme T. Valente and Cesar Martins
    Citation: BMC Genomics 2020 21:656
    Content type: Research article Published on:

    The Correspondence to this article has been published in BMC Genomics 2023 24:778

  3. The AMP-activated protein kinase (AMPK) is an intracellular fuel sensor for lipid and glucose metabolism. In addition to the short-term regulation of metabolic enzymes by phosphorylation, AMPK may also exert l...

    Authors: Heng Jiang, Nan Zhang, Caihong Ji, Xiangkun Meng, Kun Qian, Yang Zheng and Jianjun Wang
    Citation: BMC Genomics 2020 21:655
    Content type: Research article Published on:

  4. Plant mitochondrial genomes (mitogenomes) can be structurally complex while their size can vary from ~ 222 Kbp in Brassica napus to 11.3 Mbp in Silene conica. To date, in comparison with the number of plant speci...

    Authors: Yuliya A. Putintseva, Eugeniya I. Bondar, Evgeniy P. Simonov, Vadim V. Sharov, Natalya V. Oreshkova, Dmitry A. Kuzmin, Yuri M. Konstantinov, Vladimir N. Shmakov, Vadim I. Belkov, Michael G. Sadovsky, Olivier Keech and Konstantin V. Krutovsky
    Citation: BMC Genomics 2020 21:654
    Content type: Research article Published on:

  5. In China, lotus is an important cultivated crop with multiple applications in ornaments, food, and environmental purification. Adventitious roots (ARs), a secondary root is necessary for the uptake of nutritio...

    Authors: Cheng libao, Zhao minrong, Hu Zhubing, Liu huiying and Li Shuyan
    Citation: BMC Genomics 2020 21:653
    Content type: Research article Published on:

  6. The identification of cell type-specific genes (markers) is an essential step for the deconvolution of the cellular fractions, primarily, from the gene expression data of a bulk sample. However, the genes with...

    Authors: Huamei Li, Amit Sharma, Wenglong Ming, Xiao Sun and Hongde Liu
    Citation: BMC Genomics 2020 21:652
    Content type: Research article Published on:

  7. Different morphological structures of hairs having properties like defense and camouflage help animals survive in the wild environment. Horse is one of the rare kinds of animals with complex hair phenotypes in...

    Authors: Ruoyang Zhao, Wu Yihan, Yiping Zhao, Bei Li, Haige Han, Togtokh Mongke, Tugeqin Bao, Wenxing Wang, Manglai Dugarjaviin and Dongyi Bai
    Citation: BMC Genomics 2020 21:651
    Content type: Research article Published on:

  8. The small number of samples and the curse of dimensionality hamper the better application of deep learning techniques for disease classification. Additionally, the performance of clustering-based feature selec...

    Authors: Da Xu, Jialin Zhang, Hanxiao Xu, Yusen Zhang, Wei Chen, Rui Gao and Matthias Dehmer
    Citation: BMC Genomics 2020 21:650
    Content type: Research article Published on:

  9. Crustaceans express several classes of receptor genes in their antennules, which house olfactory sensory neurons (OSNs) and non-olfactory chemosensory neurons. Transcriptomics studies reveal that candidate che...

    Authors: Mihika T. Kozma, Hanh Ngo-Vu, Matthew T. Rump, Yuriy V. Bobkov, Barry W. Ache and Charles D. Derby
    Citation: BMC Genomics 2020 21:649
    Content type: Research article Published on:

  10. Disease resilience is the ability to maintain performance under pathogen exposure but is difficult to select for because breeding populations are raised under high health. Selection for resilience requires a t...

    Authors: Yulu Chen, Laura E. Tibbs-Cortes, Carolyn Ashley, Austin M. Putz, Kyu-Sang Lim, Michael K. Dyck, Frederic Fortin, Graham S. Plastow, Jack C. M. Dekkers and John C. S. Harding
    Citation: BMC Genomics 2020 21:648
    Content type: Research article Published on:

  11. High egg producing hens (HEPH) show increased hypothalamic and pituitary gene expression related to hypothalamo-pituitary-gonadal (HPG) axis stimulation as well as increased in vitro responsiveness to gonadotropi...

    Authors: Kristen Brady, Hsiao-Ching Liu, Julie A. Hicks, Julie A. Long and Tom E. Porter
    Citation: BMC Genomics 2020 21:647
    Content type: Research article Published on:

  12. SWI/SNF chromatin remodeling genes are required for normal acute responses to alcohol in C. elegans and are associated with alcohol use disorder in two human populations. In an effort to discover the downstream g...

    Authors: Laura D. Mathies, Jonathan H. Lindsay, Amal P. Handal, GinaMari G. Blackwell, Andrew G. Davies and Jill C. Bettinger
    Citation: BMC Genomics 2020 21:646
    Content type: Research article Published on:

  13. Necrotrophic effector proteins secreted by fungal pathogens are important virulence factors that mediate the development of disease in wheat. Pyrenophora tritici-repentis (Ptr), the causal agent of wheat tan spot...

    Authors: Paula Moolhuijzen, Pao Theen See and Caroline S. Moffat
    Citation: BMC Genomics 2020 21:645
    Content type: Research article Published on:

    The Correction to this article has been published in BMC Genomics 2021 22:608

  14. The lateral organ boundaries domain (LBD) gene is a plant-specific transcription factor that plays a critical role in diverse biological processes. However, the evolution and functional divergence of the LBD gene...

    Authors: Bobo Song, Zikai Tang, Xiaolong Li, Jiaming Li, Mingyue Zhang, Kejiao Zhao, Hainan Liu, Shaoling Zhang and Jun Wu
    Citation: BMC Genomics 2020 21:644
    Content type: Research article Published on:

  15. Histone deacetylases (HDACs) catalyze histone deacetylation and suppress gene transcription during various cellular processes. Within the superfamily of HDACs, RPD3/HDA1-type HDACs are the most studied, and it is...

    Authors: Jingjing Zhang, Aimin Wu, Hengling Wei, Pengbo Hao, Qi Zhang, Miaomiao Tian, Xu Yang, Shuaishuai Cheng, Xiaokang Fu, Liang Ma, Hantao Wang and Shuxun Yu
    Citation: BMC Genomics 2020 21:643
    Content type: Research article Published on:

  16. The Pacific bluefin tuna (Thunnus orientalis) is a regionally endothermic fish that maintains temperatures in their swimming musculature, eyes, brain and viscera above that of the ambient water. Within their skel...

    Authors: Adam Ciezarek, Luke Gardner, Vincent Savolainen and Barbara Block
    Citation: BMC Genomics 2020 21:642
    Content type: Research article Published on:

  17. Parkinson’s disease (PD) is a degenerative disease with early-stage pathology hypothesized to manifest in brainstem regions. Vocal deficits, including soft, monotone speech, result in significant clinical and ...

    Authors: Cynthia A. Kelm-Nelson and Stephen Gammie
    Citation: BMC Genomics 2020 21:625
    Content type: Research article Published on:

  18. In 2014, a novel tick-borne virus of the Flaviviridae family was first reported in the Mogiana region of Brazil and named the Mogiana tick virus (MGTV). Thereafter, the Jingmen tick virus (JMTV), Kindia tick viru...

    Authors: Xiaofeng Xu, Jinlong Bei, Yibo Xuan, Jiayuan Chen, Defu Chen, Stephen C. Barker, Samuel Kelava, Xiaoai Zhang, Shan Gao and Ze Chen
    Citation: BMC Genomics 2020 21:641
    Content type: Research article Published on:

  19. Marine medaka (Oryzias melastigma) is considered as an important ecotoxicological indicator to study the biochemical, physiological and molecular responses of marine organisms towards increasing amount of polluta...

    Authors: Pingping Liang, Hafiz Sohaib Ahmed Saqib, Xiaomin Ni and Yingjia Shen
    Citation: BMC Genomics 2020 21:640
    Content type: Research article Published on:

  20. Entada phaseoloides (L.) Merr. is an important traditional medicinal plant. The stem of Entada phaseoloides is popularly used as traditional medicine because of its significance in dispelling wind and dampness an...

    Authors: Weifang Liao, Zhinan Mei, Lihong Miao, Pulin Liu and Ruijie Gao
    Citation: BMC Genomics 2020 21:639
    Content type: Research article Published on:

  21. Plant viruses maintain intricate interactions with their vector and non-vector insects and can impact the fitness of insects. However, the details of their molecular and cellular mechanisms have not been studi...

    Authors: Dandan Li, Chi Zhang, Zeqian Tong, Dan Su, Gaisheng Zhang, Shize Zhang, Huiyan Zhao and Zuqing Hu
    Citation: BMC Genomics 2020 21:638
    Content type: Research article Published on:

  22. Transcriptome sequencing has opened the field of genomics to a wide variety of researchers, owing to its efficiency, applicability across species and ability to quantify gene expression. The resulting datasets...

    Authors: Cameron J. Hyde, Quinn P. Fitzgibbon, Abigail Elizur, Gregory G. Smith and Tomer Ventura
    Citation: BMC Genomics 2020 21:637
    Content type: Database Published on:

  23. Improving sow fertility is extremely important as it can lead to increased reproductive efficiency and thus profitability for swine producers. There are considerable differences in fertility rates among indivi...

    Authors: Huiyan Hu, Qing Jia, Jianzhong Xi, Bo Zhou and Zhiqiang Li
    Citation: BMC Genomics 2020 21:636
    Content type: Research article Published on:

  24. Protein kinases (PKs) play an important role in signaling cascades and are one of the largest and most conserved protein super families in plants. Despite their importance, the woodland strawberry (Fragaria vesca

    Authors: Hui Liu, Wei Qu, Kaikai Zhu and Zong-Ming ( Max) Cheng
    Citation: BMC Genomics 2020 21:635
    Content type: Research article Published on:

  25. Chilo suppressalis is a widespread rice pest that poses a major threat to food security in China. This pest can develop resistance to Cry toxins from Bacillus thuringiensis (Bt), threatening the sustainable use o...

    Authors: Geng Chen, Yanhui Wang, Yanmin Liu, Fajun Chen and Lanzhi Han
    Citation: BMC Genomics 2020 21:634
    Content type: Research article Published on:

  26. Previous studies show that galanin neurons in ventrolateral preoptic nucleus (VLPO-Gal) are essential for sleep regulation. Here, we explored the transcriptional regulation of the VLPO-Gal neurons in sleep by ...

    Authors: Xiaofeng Guo, Xiaoling Gao, Brendan T. Keenan, Jingxu Zhu, Dimitra Sarantopoulou, Jie Lian, Raymond J. Galante, Gregory R. Grant and Allan I. Pack
    Citation: BMC Genomics 2020 21:633
    Content type: Research article Published on:

  27. Functional genomics employs several experimental approaches to investigate gene functions. High-throughput techniques, such as loss-of-function screening and transcriptome profiling, allow to identify lists of...

    Authors: Natalia Rubanova, Guillaume Pinna, Jeremie Kropp, Anna Campalans, Juan Pablo Radicella, Anna Polesskaya, Annick Harel-Bellan and Nadya Morozova
    Citation: BMC Genomics 2020 21:632
    Content type: Methodology article Published on:

  28. We benchmarked the hybrid assembly approaches of MaSuRCA, SPAdes, and Unicycler for bacterial pathogens using Illumina and Oxford Nanopore sequencing by determining genome completeness and accuracy, antimicrob...

    Authors: Zhao Chen, David L. Erickson and Jianghong Meng
    Citation: BMC Genomics 2020 21:631
    Content type: Research article Published on:

  29. The contribution of mitogen-activated protein kinase (MAPK) cascades to plant growth and development has been widely studied, but this knowledge has not yet been extended to the medicinal plant Salvia miltiorrhiz...

    Authors: Yongfeng Xie, Meiling Ding, Bin Zhang, Jie Yang, Tianlin Pei, Pengda Ma and Juane Dong
    Citation: BMC Genomics 2020 21:630
    Content type: Research article Published on:

  30. Seasonal weight loss (SWL) is a very important limitation to the production of ruminants in the Mediterranean and Tropical regions. In these areas, long dry seasons lead to poor pastures with low nutritional v...

    Authors: José Ricardo Parreira, Lorenzo Enrique Hernández-Castellano, Anastasio Argüello, Juan Capote, Noemí Castro, Susana de Sousa Araújo and André Martinho de Almeida
    Citation: BMC Genomics 2020 21:629
    Content type: Research article Published on:

  31. Age-related resistance (ARR) is a developmentally regulated phenomenon conferring resistance to pathogens or pests. Although ARR has been observed in several host-pathogen systems, the underlying mechanisms ar...

    Authors: Ben N. Mansfeld, Marivi Colle, Chunqiu Zhang, Ying-Chen Lin and Rebecca Grumet
    Citation: BMC Genomics 2020 21:628
    Content type: Research article Published on:

  32. DNA N4-methylcytosine (4mC) is a critical epigenetic modification and has various roles in the restriction-modification system. Due to the high cost of experimental laboratory detection, computational methods ...

    Authors: Zhixun Zhao, Xiaocai Zhang, Fang Chen, Liang Fang and Jinyan Li
    Citation: BMC Genomics 2020 21:627
    Content type: Research article Published on:

  33. The environmental impact of pig farming need to be reduced, with phosphorus (P) being of particular interest. Specified dietary regimens and management systems contribute to meet environmental concerns and red...

    Authors: Aisanjiang Wubuli, Christian Gerlinger, Henry Reyer, Michael Oster, Eduard Muráni, Nares Trakooljul, Siriluck Ponsuksili, Petra Wolf and Klaus Wimmers
    Citation: BMC Genomics 2020 21:626
    Content type: Research article Published on:

  34. The cattle introduced by European conquerors during the Brazilian colonization period were exposed to a process of natural selection in different types of biomes throughout the country, leading to the developm...

    Authors: Elisa Peripolli, Christian Reimer, Ngoc-Thuy Ha, Johannes Geibel, Marco Antonio Machado, João Cláudio do Carmo Panetto, Andréa Alves do Egito, Fernando Baldi, Henner Simianer and Marcos Vinícius Gualberto Barbosa da Silva
    Citation: BMC Genomics 2020 21:624
    Content type: Research article Published on:

  35. Goats (Capra hircus), one of the first domesticated species, are economically important for milk and meat production, and their broad geographical distribution reflects their successful adaptation to diverse envi...

    Authors: Francesco Giannico, Serafina Massari, Anna Caputi Jambrenghi, Adriano Soriano, Angela Pala, Giovanna Linguiti, Salvatrice Ciccarese and Rachele Antonacci
    Citation: BMC Genomics 2020 21:623
    Content type: Research article Published on:

  36. Peromyscus are the most common mammalian species in North America and are widely used in both laboratory and field studies. The deer mouse, P. maniculatus and the old-field mouse, P. polionotus, are closely relat...

    Authors: Zhenhua Shang, David J. Horovitz, Ronald H. McKenzie, Jessica L. Keisler, Michael R. Felder and Shannon W. Davis
    Citation: BMC Genomics 2020 21:622
    Content type: Research article Published on:

  37. Chrysosplenium L. (Saxifragaceae) is a genus of plants widely distributed in Northern Hemisphere and usually found in moist, shaded valleys and mountain slopes. This genus is ideal for studying plant adaptation t...

    Authors: Zhihua Wu, Rui Liao, Tiange Yang, Xiang Dong, Deqing Lan, Rui Qin and Hong Liu
    Citation: BMC Genomics 2020 21:621
    Content type: Research article Published on:

  38. Since 2008, the aquaculture production of Crassostrea gigas was heavily affected by mass mortalities associated to Ostreid herpesvirus 1 (OsHV-1) microvariants worldwide. Transcriptomic studies revealed the major...

    Authors: Umberto Rosani, Miriam Abbadi, Timothy Green, Chang-Ming Bai, Edoardo Turolla, Giuseppe Arcangeli, K. Mathias Wegner and Paola Venier
    Citation: BMC Genomics 2020 21:620
    Content type: Research article Published on:

  41. Chimpanzees are the closest living relatives of humans. The divergence between human and chimpanzee ancestors dates to approximately 6,5–7,5 million years ago. Genetic features distinguishing us from chimpanze...

    Authors: Maria V. Suntsova and Anton A. Buzdin
    Citation: BMC Genomics 2020 21(Suppl 7):535
    Content type: Review Published on:

    This article is part of a Supplement: Volume 21 Supplement 7

  42. Massive forest decline has been observed almost everywhere as a result of negative anthropogenic and climatic effects, which can interact with pests, fungi and other phytopathogens and aggravate their effects....

    Authors: Vasilina S. Akulova, Vadim V. Sharov, Anastasiya I. Aksyonova, Yuliya A. Putintseva, Natalya V. Oreshkova, Sergey I. Feranchuk, Dmitry A. Kuzmin, Igor N. Pavlov, Yulia A. Litovka and Konstantin V. Krutovsky
    Citation: BMC Genomics 2020 21(Suppl 7):534
    Content type: Research Published on:

    This article is part of a Supplement: Volume 21 Supplement 7

  43. Head-to-head comparison of BeadChip and WGS/WES genotyping techniques for their precision is far from straightforward. A tool for validation of high-throughput genotyping calls such as Sanger sequencing is nei...

    Authors: Kirill A. Danilov, Dimitri A. Nikogosov, Sergey V. Musienko and Ancha V. Baranova
    Citation: BMC Genomics 2020 21(Suppl 7):528
    Content type: Research Published on:

    This article is part of a Supplement: Volume 21 Supplement 7

  44. Predicting the eye and hair color from genotype became an established and widely used tool in forensic genetics, as well as in studies of ancient human populations. However, the accuracy of this tool has been ...

    Authors: Elena Balanovska, Elena Lukianova, Janet Kagazezheva, Andrey Maurer, Natalia Leybova, Anastasiya Agdzhoyan, Igor Gorin, Valeria Petrushenko, Maxat Zhabagin, Vladimir Pylev, Elena Kostryukova and Oleg Balanovsky
    Citation: BMC Genomics 2020 21(Suppl 7):527
    Content type: Research Published on:

    This article is part of a Supplement: Volume 21 Supplement 7

  45. According to history, in the pre-Hispanic period, during the conquest and Inka expansion in Ecuador, many Andean families of the Cañar region would have been displaced to several places of Tawantinsuyu, including...

    Authors: José R. Sandoval, Daniela R. Lacerda, Marilza M. S. Jota, Paulo Robles-Ruiz, Pierina Danos, César Paz-y-Miño, Spencer Wells, Fabrício R. Santos and Ricardo Fujita
    Citation: BMC Genomics 2020 21(Suppl 7):413
    Content type: Research Published on:

    This article is part of a Supplement: Volume 21 Supplement 7

  46. Background Telomeres, which are composed of repetitive nucleotide sequences at the end of chromosomes, behave as a division clock that measures replicative senescence. Under the normal physiological condition,...

    Authors: Kyung Hyun Lee and Marek Kimmel
    Citation: BMC Genomics 2020 21(Suppl 9):587
    Content type: Research Published on:

    This article is part of a Supplement: Volume 21 Supplement 9

  47. Haplotypes, the ordered lists of single nucleotide variations that distinguish chromosomal sequences from their homologous pairs, may reveal an individual’s susceptibility to hereditary and complex diseases an...

    Authors: Abishek Sankararaman, Haris Vikalo and François Baccelli
    Citation: BMC Genomics 2020 21(Suppl 9):586
    Content type: Research Published on:

    This article is part of a Supplement: Volume 21 Supplement 9

  48. Single-cell RNA sequencing (scRNA-seq) is a powerful profiling technique at the single-cell resolution. Appropriate analysis of scRNA-seq data can characterize molecular heterogeneity and shed light into the u...

    Authors: Siamak Zamani Dadaneh, Paul de Figueiredo, Sing-Hoi Sze, Mingyuan Zhou and Xiaoning Qian
    Citation: BMC Genomics 2020 21(Suppl 9):585
    Content type: Research Published on:

    This article is part of a Supplement: Volume 21 Supplement 9

  49. B cell affinity maturation enables B cells to generate high-affinity antibodies. This process involves somatic hypermutation of B cell immunoglobulin receptor (BCR) genes and selection by their ability to bind...

    Authors: Xingyu Yang, Christopher M. Tipton, Matthew C. Woodruff, Enlu Zhou, F. Eun-Hyung Lee, Inãki Sanz and Peng Qiu
    Citation: BMC Genomics 2020 21(Suppl 9):583
    Content type: Research Published on:

    This article is part of a Supplement: Volume 21 Supplement 9

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