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  1. Selection of optimal computational strategies for analyzing metagenomics data is a decisive step in determining the microbial composition of a sample, and this procedure is complex because of the numerous tool...

    Authors: Carine Poussin, Lusine Khachatryan, Nicolas Sierro, Vijay Kumar Narsapuram, Fernando Meyer, Vinay Kaikala, Vandna Chawla, Usha Muppirala, Sunil Kumar, Vincenzo Belcastro, James N. D. Battey, Elena Scotti, Stéphanie Boué, Alice C. McHardy, Manuel C. Peitsch, Nikolai V. Ivanov…
    Citation: BMC Genomics 2022 23:624
  2. The pathophysiological effects of a number of metabolic and age-related disorders can be prevented to some extent by exercise and increased physical activity. However, the molecular mechanisms that contribute ...

    Authors: Arpan C. Ghosh, Yanhui Hu, Sudhir Gopal Tattikota, Yifang Liu, Aram Comjean and Norbert Perrimon
    Citation: BMC Genomics 2022 23:623
  3. Equid gammaherpesvirus 2 (EHV2) is a gammaherpesvirus with a widespread distribution in horse populations globally. Although its pathogenic significance can be unclear in most cases of infection, EHV2 infectio...

    Authors: Adepeju E. Onasanya, Charles El-Hage, Andrés Diaz-Méndez, Paola K. Vaz, Alistair R. Legione, Glenn F. Browning, Joanne M. Devlin and Carol A. Hartley
    Citation: BMC Genomics 2022 23:622
  4. Lysine 2-hydroxyisobutyrylation (Khib) is a novel and conserved post-translational modification (PTM). Frankliniella occidentalis are economically important agricultural pests globally and also notorious for vect...

    Authors: Chengying Ding, Liyun Song, Ying Li, Lili Shen, Dongyang Liu, Fenglong Wang, Zhonglong Lin and Jinguang Yang
    Citation: BMC Genomics 2022 23:621
  5. Tetrastigma hemsleyanum is a valuable traditional Chinese medicinal plant widely distributed in the subtropical areas of China. It belongs to the Cayratieae tribe, family Vitaceae, and exhibited significant anti-...

    Authors: Shujie Dong, Manjia Zhou, Jinxing Zhu, Qirui Wang, Yuqing Ge and Rubin Cheng
    Citation: BMC Genomics 2022 23:620
  6. The objective of this study was to reveal the flavonoid biosynthesis pathway in white (Z6), red (Z27) and black (HC4) seeds of the sweet sorghum (Sorghum bicolor) using metabolomics and transcriptomics, to identi...

    Authors: Yaxing Zhou, Jingbo Lv, Zhonghao Yu, Zhenguo Wang, Yan Li, Mo Li, Zhilan Deng, Qingquan Xu, Fengjuan Cui and Wei Zhou
    Citation: BMC Genomics 2022 23:619
  7. Vagococcus fluvialis is a species of lactic acid bacteria found both free-living in river and seawater and associated to hosts, such as marine sponges. This species has been greatly understudied, with no complete...

    Authors: Ana Rodriguez Jimenez, Nadège Guiglielmoni, Lise Goetghebuer, Etienne Dechamps, Isabelle F. George and Jean-François Flot
    Citation: BMC Genomics 2022 23:618
  8. Individuals with schizophrenia (SCZ) have, on average, a 10- to 20-year shorter expected life span than the rest of the population, primarily due to cardiovascular disease comorbidity. Genome-wide association ...

    Authors: Qian He, Adam N. Bennett, Jundong Liu, Beifang Fan, Xue Han, Lu Cheng, Yan Chen, Xia Yang and Kei Hang Katie Chan
    Citation: BMC Genomics 2022 23:617
  9. The reduction of the chromosome number from 48 in the Great Apes to 46 in modern humans is thought to result from the end-to-end fusion of two ancestral non-human primate chromosomes forming the human chromoso...

    Authors: Barbara Poszewiecka, Krzysztof Gogolewski, Paweł Stankiewicz and Anna Gambin
    Citation: BMC Genomics 2022 23(Suppl 6):616

    This article is part of a Supplement: Volume 23 Supplement 6

  10. The use of archived formalin-fixed paraffin-embedded (FFPE) tumor tissues has become a common practice in clinical and epidemiologic genetic research. Simultaneous extraction of DNA and RNA from FFPE tissues i...

    Authors: Rochelle Payne Ondracek, Jianhong Chen, Beth Marosy, Sirinapa Szewczyk, Leonard Medico, Amrutha Sherly Mohan, Priya Nair, Rachel Pratt, Janise M. Roh, Thaer Khoury, John Carpten, Lawrence H. Kushi, Julie R. Palmer, Kim Doheny, Warren Davis, Michael J. Higgins…
    Citation: BMC Genomics 2022 23:614
  11. The histidine metabolism and transport (his) genes are controlled by a variety of RNA-dependent regulatory systems among diverse taxonomic groups of bacteria including T-box riboswitches in Firmicutes and Actinob...

    Authors: German A. Ashniev, Natalia V. Sernova, Aleksei E. Shevkoplias, Ivan D. Rodionov, Irina A. Rodionova, Alexey G. Vitreschak, Mikhail S. Gelfand and Dmitry A. Rodionov
    Citation: BMC Genomics 2022 23(Suppl 6):558

    This article is part of a Supplement: Volume 23 Supplement 6

  12. Dendrobium catenatum/D. officinale (here after D. catenatum), a well-known economically important traditional medicinal herb, produces a variety of bioactive metabolites including polysaccharides, alkaloids, and ...

    Authors: Zhicai Wang, Meili Zhao, Xiaojie Zhang, Xuming Deng, Jian Li and Meina Wang
    Citation: BMC Genomics 2022 23:612
  13. Emerging transcriptome-wide high-throughput screenings reveal the landscape and functions of RNAs, such as circular RNAs (circRNAs), in human cancer. In addition, the post-transcriptional RNA internal modifica...

    Authors: Wei Zhao, Jingwen Liu, Jie Wu, Xiaozhou Ma, Xi Wang, Leyu Zhang, Zhe Han, Jianming Yang, Yameng Cui, Xin Hu and Jiayin Deng
    Citation: BMC Genomics 2022 23:611
  14. Nematodes are parasitic animals that cause over 100 billion US dollars loss in agricultural business. The whole-genomes of two Streptomyces strains, Streptomyces spectabilis KCTC9218T and Streptomyces sp. AN09196...

    Authors: Jeong Sang Yi, Jung Min Kim, Min-Kyoung Kang, Jong Hoon Kim, Hang Su Cho, Yeon Hee Ban, Myoung Chong Song, Kwang-Hee Son and Yeo Joon Yoon
    Citation: BMC Genomics 2022 23:610
  15. For over a century, scientists have studied host-pathogen interactions between the crayfish plague disease agent Aphanomyces astaci and freshwater crayfish. It has been hypothesised that North American crayfish h...

    Authors: Ljudevit Luka Boštjančić, Caterina Francesconi, Christelle Rutz, Lucien Hoffbeck, Laetitia Poidevin, Arnaud Kress, Japo Jussila, Jenny Makkonen, Barbara Feldmeyer, Miklós Bálint, Klaus Schwenk, Odile Lecompte and Kathrin Theissinger
    Citation: BMC Genomics 2022 23:600

    The Data note to this article has been published in BMC Research Notes 2022 15:281

  16. Bacillus Calmette–Guérin (BCG) refers to a group of vaccine strains with unique genetic characteristics. BCG is the only available vaccine for preventing tuberculosis (TB). Genetic and biochemical variations a...

    Authors: Mahla Asadian, Seyed Mehdi Hassanzadeh, Azadeh Safarchi and Masoumeh Douraghi
    Citation: BMC Genomics 2022 23:609
  17. Functional genomics uses unbiased systematic genome-wide gene disruption or analyzes natural variations such as gene expression profiles of different tissues from multicellular organisms to link gene functions...

    Authors: Sabrina Lehmann, Bibi Atika, Daniela Grossmann, Christian Schmitt-Engel, Nadi Strohlein, Upalparna Majumdar, Tobias Richter, Matthias Weißkopf, Salim Ansari, Matthias Teuscher, Muhammad Salim Hakeemi, Jianwei Li, Bernhard Weißbecker, Martin Klingler, Gregor Bucher and Ernst A. Wimmer
    Citation: BMC Genomics 2022 23:608
  18. The development of the ovaries is an important factor that affects egg production performance in geese. Ovarian development is regulated by genes that are expressed dynamically and stage-specifically. The tran...

    Authors: Xiaoyu Zhao, Yingping Wu, Haiying Li, Jiahui Li, Yingying Yao, Yan Cao and Zhiyong Mei
    Citation: BMC Genomics 2022 23:607
  19. Rice sheath blight, which is caused by Rhizoctonia solani, is the most destructive disease affecting rice production, but the resistance mechanism to this pathogen has not been fully elucidated.

    Authors: Yan Wang, Hang Luo, Haining Wang, Zongjing Xiang, Songhong Wei and Wenjing Zheng
    Citation: BMC Genomics 2022 23:606
  20. Morinda officinalis How (MO) is a perennial herb distributed in tropical and subtropical regions, which known as one of the “Four Southern Herbal Medicines”. The extent of genetic variability and the population s...

    Authors: Zhenhua Luo, Zien Chen, Mengyun Liu, Li Yang, Zhimin Zhao, Depo Yang and Ping Ding
    Citation: BMC Genomics 2022 23:605
  21. Flavonols are the largest subgroup of flavonoids, possessing multiple functions in plants including protection against ultraviolet radiation, antimicrobial activities, and flower pigmentation together with ant...

    Authors: Hanna M. Schilbert and Beverley J. Glover
    Citation: BMC Genomics 2022 23:604
  22. It is currently assumed that around 100 million years ago, the common ancestor to the Fabales, Fagales, Rosales and Cucurbitales in Gondwana, developed a root nodule symbiosis with a nitrogen-fixing bacterium....

    Authors: Fede Berckx, Thanh Van Nguyen, Cyndi Mae Bandong, Hsiao-Han Lin, Takashi Yamanaka, Sae Katayama, Daniel Wibberg, Jochen Blom, Jörn Kalinowski, Masaki Tateno, Jessica Simbahan, Chi-Te Liu, Andreas Brachmann and Katharina Pawlowski
    Citation: BMC Genomics 2022 23:602
  23. Due to the prolonged usage of Bt-based biopesticides and Bt-transgenic crops worldwide, insects are continually developing resistance against Cry toxins. This resistance may occur if any mechanistic step in th...

    Authors: Tushar K. Dutta, Abhishek Mandal, Artha Kundu, Victor Phani, Chetna Mathur, Arudhimath Veeresh and Rohini Sreevathsa
    Citation: BMC Genomics 2022 23:601
  24. Somatic copy number alterations (SCNAs) are an important class of genomic alteration in cancer. They are frequently observed in cancer samples, with studies showing that, on average, SCNAs affect 34% of a canc...

    Authors: Sam Abujudeh, Sebastian S. Zeki, Meta C.J. van Lanschot, Mark Pusung, Jamie M.J. Weaver, Xiaodun Li, Ayesha Noorani, Andrew J. Metz, Jan Bornschein, Lawrence Bower, Ahmad Miremadi, Rebecca C. Fitzgerald, Edward R. Morrissey and Andy G. Lynch
    Citation: BMC Genomics 2022 23:599
  25. Dehydration responsive element binding protein (DREB) is a significant transcription factor class known to be implicated in abiotic stresses. In this study, we systematically conducted a genome-wide identifica...

    Authors: Ying Wu, Liting Zhang, Libing Nie, Yushan Zheng, Shidong Zhu, Jinfeng Hou, Renjie Li, Guohu Chen, Xiaoyan Tang, Chenggang Wang and Lingyun Yuan
    Citation: BMC Genomics 2022 23:598
  26. Monochasma savatieri Franch. ex Maxim is a medicinally valuable herb. However, the collection and protection of the wild germplasm resources of M. savatieri are still insufficient, and their genetic diversity and...

    Authors: Wanling Yang, Zhiyi Bai, Fuqiang Wang, Mingzhu Zou, Xinru Wang, Jiankun Xie and Fantao Zhang
    Citation: BMC Genomics 2022 23:597
  27. Explored the molecular science of anther development is important for improving productivity and overall yield of crops. Although the role of regulatory RNAs, including long non-coding RNAs (lncRNAs) and micro...

    Authors: Lingshan Kong, Yanjing Zhuo, Jieru Xu, Xiangxu Meng, Yue Wang, Wenxiu Zhao, Hanggui Lai, Jinhui Chen and Jian Wang
    Citation: BMC Genomics 2022 23:596
  28. Longissimus muscle samples were collected from lambs exposed in utero to mycotoxins [E-, endophyte-free tall fescue seed without ergot alkaloids (negative control) or E + , endophyte-infected tall fescue seed ...

    Authors: M. A. Greene, A. N. S. Udoka, R. R. Powell, R. E. Noorai, T. Bruce and S. K. Duckett
    Citation: BMC Genomics 2022 23:595
  29. Carcass backfat thickness (BFT), carcass lean percentage (CLP) and carcass fat percentage (CFP) are important to the commercial pig industry. Nevertheless, the genetic architecture of BFT, CLP and CFP is still...

    Authors: Huiyu Wang, Xiaoyi Wang, Dawei Yan, Hao Sun, Qiang Chen, Mingli Li, Xinxing Dong, Yuchun Pan and Shaoxiong Lu
    Citation: BMC Genomics 2022 23:594
  30. Maize kernel row number (KRN) is one of the most important yield traits and has changed greatly during maize domestication and selection. Elucidating the genetic basis of KRN will be helpful to improve grain y...

    Authors: Xiaohong Fei, Yifei Wang, Yunxiao Zheng, Xiaomeng Shen, Lizhu E, Junqiang Ding, Jinsheng Lai, Weibin Song and Haiming Zhao
    Citation: BMC Genomics 2022 23:593
  31. Hypertension-induced cardiac hypertrophy is one of the most common pre-conditions that accompanies heart failure. This study aimed to identify the key pathogenic genes in the disease process.

    Authors: Rui Zhang, Xuan Xu, Xi Chen, Chunshu Hao, Zhenjun Ji, Pengfei Zuo, Mingming Yang, Genshan Ma and Yongjun Li
    Citation: BMC Genomics 2022 23:592
  32. Insect metamorphosis from larvae to pupae is one of the most important stages of insect life history. Relatively comprehensive information related to gene transcription profiles during lepidopteran metamorphos...

    Authors: Xinxin Gao, Jihong Zhang, Peipei Wu, Ruihao Shu, Huan Zhang, Qilian Qin and Qian Meng
    Citation: BMC Genomics 2022 23:591
  33. Carcass traits are important in pig breeding programs for improving pork production. Understanding the genetic variants underlies complex phenotypes can help explain trait variation in pigs. In this study, we ...

    Authors: Rongrong Ding, Zhanwei Zhuang, Yibin Qiu, Xingwang Wang, Jie Wu, Shenping Zhou, Donglin Ruan, Cineng Xu, Linjun Hong, Ting Gu, Enqin Zheng, Gengyuan Cai, Wen Huang, Zhenfang Wu and Jie Yang
    Citation: BMC Genomics 2022 23:590
  34. In the life history of Daphnia, the reproductive mode of parthenogenesis and sexual reproduction alternate in aquatic ecosystem, which are often affected by environmental and genetic factors. Recently, the sex-bi...

    Authors: Ziyan Wang, Feiyun Zhang, Qide Jin, Yeping Wang, Wenping Wang and Daogui Deng
    Citation: BMC Genomics 2022 23:589
  35. The cardiovascular developmental process is a tightly regulated network involving multiple genes. The current understanding of the molecular mechanism behind cardiovascular development is insufficient and requ...

    Authors: Chune Zhou, Wei Zhao, Shuqiang Zhang, Junguo Ma, Yousef Sultan and Xiaoyu Li
    Citation: BMC Genomics 2022 23:587
  36. Porcine Epidemic Diarrhea Virus (PEDV) is a coronavirus that seriously affects the swine industry. MicroRNAs and long noncoding RNAs are two relevant non-coding RNAs (ncRNAs) class and play crucial roles in a ...

    Authors: Xiaojie Shi, Qi Zhang, Jingjing Wang, Yuting Zhang, Yuchao Yan, Yi Liu, Naling Yang, Quanqiong Wang and Xingang Xu
    Citation: BMC Genomics 2022 23:586
  37. Quantitative real time PCR (qPCR) is a powerful tool to evaluate mRNA expression level. However, reliable qPCR results require normalization with validated reference gene(s). In this study, we investigated sta...

    Authors: Jeongah Song, Jeonghee Cho, Jeongsik Park and Jeong Ho Hwang
    Citation: BMC Genomics 2022 23:585
  38. Mitochondrial genomes are the most sequenced genomes after bacterial and fungal genomic DNA. However, little information on mitogenomes is available for multiple metazoan taxa, such as Culicoides, a globally dist...

    Authors: Yoamel Milián-García, Christopher A. Hempel, Lauren A. A. Janke, Robert G. Young, Tara Furukawa-Stoffer, Aruna Ambagala, Dirk Steinke and Robert H. Hanner
    Citation: BMC Genomics 2022 23:584
  39. Patatin-like phospholipase domain containing 5 (PNPLA5) is a newly-discovered lipase. Although the PNPLA family plays critical roles in diverse biological processes, the biological functions of PNPLA5 mostly u...

    Authors: Zhi-Guo Liu, Yan-Qing Hu, Kui Li, Yu-Lian Mu and Tian-Wen Wu
    Citation: BMC Genomics 2022 23:583
  40. Exome sequencing is becoming a routine in health care, because it increases the chance of pinpointing the genetic cause of an individual patient's condition and thus making an accurate diagnosis. It is importa...

    Authors: Vera Belova, Anna Shmitko, Anna Pavlova, Robert Afasizhev, Valery Cheranev, Anastasia Tabanakova, Natalya Ponikarovskaya, Denis Rebrikov and Dmitriy Korostin
    Citation: BMC Genomics 2022 23:582
  41. High temperature induces early bolting in lettuce (Lactuca sativa L.), which affects both quality and production. However, the molecular mechanism underlying high temperature-induced bolting is still limited.

    Authors: Jinghong Hao, Junwei Yang, Xiaofeng Liu, Gaoyang Pan, Yunfeng Li, Xiaolan Zhang, Yingyan Han, Shuangxi Fan and Zhaoyang Zhou
    Citation: BMC Genomics 2022 23:580
  42. Sequencing viruses in many specimens is hindered by excessive background material from hosts, microbiota, and environmental organisms. Consequently, enrichment of target genomic material is necessary for pract...

    Authors: Kevin S. Kuchinski, Jun Duan, Chelsea Himsworth, William Hsiao and Natalie A. Prystajecky
    Citation: BMC Genomics 2022 23:579
  43. As a valuable medicinal plant, Rhodiola has a very long history of folk medicine used as an important adaptogen, tonic, and hemostatic. However, our knowledge of the chloroplast genome level of Rhodiola is limite...

    Authors: Kaihui Zhao, Lianqiang Li, Hong Quan, Junbo Yang, Zhirong Zhang, Zhihua Liao and Xiaozhong Lan
    Citation: BMC Genomics 2022 23:577
  44. Genetics studies in the porcine immune system have enhanced selection practices for disease resistance phenotypes and increased the efficacy of porcine models in biomedical research; however limited functional...

    Authors: Ryan J. Corbett, Andrea M. Luttman, Juber Herrera-Uribe, Haibo Liu, Nancy E. Raney, Jenna M. Grabowski, Crystal L. Loving, Christopher K. Tuggle and Catherine W. Ernst
    Citation: BMC Genomics 2022 23:575

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