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  1. Potential functional variants (PFVs) can be defined as genetic variants responsible for a given phenotype. Ultimately, these are the best DNA markers for animal breeding and selection, especially for polygenic...

    Authors: Gabriela Ribeiro, Fernando Baldi, Aline S. M. Cesar, Pâmela A. Alexandre, Elisa Peripolli, José B. S. Ferraz and Heidge Fukumasu
    Citation: BMC Genomics 2022 23:774
  2. Squamous promoter binding protein-like (SPL) proteins are a class of transcription factors that play essential roles in plant growth and development, signal transduction, and responses to biotic and abiotic st...

    Authors: Yanyan Ren, Rui Ma, Yue Fan, Bingjie Zhao, Peng Cheng, Yu Fan and Baotong Wang
    Citation: BMC Genomics 2022 23:773
  3. The transcriptional changes around zygotic genome activation (ZGA) in preimplantation embryos are critical for studying mechanisms of embryonic developmental arrest and searching for key transcription factors....

    Authors: Yanhui Zhai, Hao Yu, Xinglan An, Zhiren Zhang, Meng Zhang, Sheng Zhang, Qi Li and Ziyi Li
    Citation: BMC Genomics 2022 23:772
  4. Pre-harvest sprouting (PHS) is one of the most serious rice production constraints in areas where prolonged rainfall occurs during harvest. However, the molecular mechanisms of transcriptional regulation under...

    Authors: Dong Liu, Mingyang Zeng, Yan Wu, Yanli Du, Jianming Liu, Shaoqiang Luo and Yongjun Zeng
    Citation: BMC Genomics 2022 23:771
  5. Although knowledge of the sizes, contents, and forms of plant mitochondrial genomes (mitogenomes) is increasing, little is known about the mechanisms underlying their structural diversity. Evolutionary informa...

    Authors: Lei Wei, Tong-Jian Liu, Gang Hao, Xue-Jun Ge and Hai-Fei Yan
    Citation: BMC Genomics 2022 23:770
  6. Most susceptible loci of hepatocellular carcinoma (HCC) identified by genome-wide association studies (GWAS) are located in non-coding regions, and the mechanism of action remains unclear. The objective of thi...

    Authors: Han Mo, Xi Wang, Guohua Ji, Xiao Liang, Yi Yang, Wenjing Sun, Xueyuan Jia, Lidan Xu, Yuandong Qiao, Henan Zhou, Wenhui Zhao, Songbin Fu and Xuelong Zhang
    Citation: BMC Genomics 2022 23:769
  7. Mycobacterium avium subsp. paratuberculosis (MAP) is the causative agent of paratuberculosis. As a potential zoonotic pathogen, MAP also seriously threatens human health and social security. At present, long non-...

    Authors: Yanhong Bao, Shuiyin Wu, Tianze Yang, Zi Wang, Yiming Wang, Xiuyun Jiang and Hongxia Ma
    Citation: BMC Genomics 2022 23:768
  8. Maize-infecting viruses are known to inflict significant agronomic yield loss throughout the world annually. Identification of known or novel causal agents of disease prior to outbreak is imperative to preserv...

    Authors: Ryan R. Lappe, Manjula G. Elmore, Zachary R. Lozier, Georg Jander, W. Allen Miller and Steven A. Whitham
    Citation: BMC Genomics 2022 23:767
  9. Elucidating the phylogenetic relationships within species-rich genera is essential but challenging, especially when lineages are assumed to have been going through radiation events. Mahonia Nutt. (Berberidaceae) ...

    Authors: Ruchang Tong, Chaoxia Gui, Yu Zhang, Na Su, Xiaoqi Hou, Meng Liu, Zhaoping Yang, Bing Kang, Zhaoyang Chang, Florian Jabbour and Liang Zhao
    Citation: BMC Genomics 2022 23:766
  10. The first metazoan genome sequenced, that of Caenorhabditis elegans, has motivated animal genome evolution studies. To date > 50 species from the genus Caenorhabditis have been sequenced, allowing research on gen...

    Authors: Simo Sun, Natsumi Kanzaki, Mehmet Dayi, Yasunobu Maeda, Akemi Yoshida, Ryusei Tanaka and Taisei Kikuchi
    Citation: BMC Genomics 2022 23:765
  11. Rectal cancer (RC) is one of the most common malignant tumors. Ferroptosis is an iron-dependent form of cell death, which plays an important role in various cancers. However, the correlation between ferroptosi...

    Authors: Wei-Kun Shi, Yu-Xin Liu, Xiao-Yuan Qiu, Jing-Ya Zhou, Jiao-Lin Zhou and Guo-Le Lin
    Citation: BMC Genomics 2022 23:764
  12. The Kurds as an ethnic group are believed to be a combination of earlier Indo-European tribes who migrated and inhabited a mountainous area thousands of years ago. However, as it is difficult to describe the p...

    Authors: Balnd M. Albarzinji, Farhad M. Abdulkarim, Shaho A. Hussein, Dlshad Rashid and Hayder Lazim
    Citation: BMC Genomics 2022 23:763
  13. Older adults are more prone to develop systemic dehydration. Systemic dehydration has implications for vocal fold biology by affecting gene and protein expression. The objective of this study was to quantify v...

    Authors: Naila C. do Nascimento, Taylor W. Bailey, Andrea P. Santos, Chenwei Duan, Rodrigo Mohallem, Jackeline Franco, Uma K. Aryal, Jun Xie, Abigail Cox and M. Preeti Sivasankar
    Citation: BMC Genomics 2022 23:762
  14. Protoporphyrin IX (Pp IX) is the primary pigment for brown eggshells. However, the regulatory mechanisms directing Pp IX synthesis, transport, and genetic regulation during eggshell calcification in chickens r...

    Authors: Jing Yang, Zhiqiong Mao, Xiqiong Wang, Jingjie Zhuang, Sijia Gong, Zhouyang Gao, Guiyun Xu, Ning Yang and Congjiao Sun
    Citation: BMC Genomics 2022 23:761
  15. Retained placenta (RP) is a prevalent disorder in cattle with many health-related and economic costs for the farm owners. Its etiology has not been clarified yet and there is no definite therapy for this disor...

    Authors: Mehdi Moradi, Mahdi Zhandi, Mohsen Sharafi, Arvand Akbari, Mohammad Jafari Atrabi and Mehdi Totonchi
    Citation: BMC Genomics 2022 23:760
  16. The cold pressor test (CPT) is a widely used pain provocation test to investigate both pain tolerance and cardiovascular responses. We hypothesize, that performing multi-omic analyses during CPT gives the oppo...

    Authors: Lisette J. A. Kogelman, Madeleine Ernst, Katrine Falkenberg, Gianluca Mazzoni, Julie Courraud, Li Peng Lundgren, Susan Svane Laursen, Arieh Cohen, Jes Olesen and Thomas Folkmann Hansen
    Citation: BMC Genomics 2022 23:759
  17. Hemiptera is one of the most speciose orders of insects, and the most speciose considering Hemimetabola. Through their evolutive history, hemipterans with different feeding habits have adapted to deal with dif...

    Authors: Mariano Volonté, Lucila Traverso, Jose Manuel Latorre Estivalis, Francisca Cunha Almeida and Sheila Ons
    Citation: BMC Genomics 2022 23:757
  18. Since inception of the COVID-19 pandemic, early detection and isolation of positive cases is one of the key strategies to restrict disease transmission. Real time reverse transcription polymerase chain reactio...

    Authors: Swati Gupta, Amit Kumar, Nivedita Gupta, Deepak R. Bharti, Neeraj Aggarwal and Vasanthapuram Ravi
    Citation: BMC Genomics 2022 23:755
  19. Although a number of imprinted genes are known to be highly expressed in the brain, and in certain brain regions in particular, whether they are truly over-represented in the brain has never been formally test...

    Authors: M. J. Higgs, M. J. Hill, R. M. John and A. R. Isles
    Citation: BMC Genomics 2022 23:754
  20. Continuous tilling and the lateral growth of rhizomes confer rhizomatous grasses with the unique ability to laterally expand, migrate and resist disturbances. They play key roles especially in degraded grassla...

    Authors: Jialin Li, Hongmei Li, Ning Yin, Xiaoyan Quan, Wenbo Wang, Qiuli Shan, Siqi Wang, Ramon Santos Bermudez and Wenxing He
    Citation: BMC Genomics 2022 23:753
  21. Elucidation of the genetic mechanisms underlying treatment response to standard induction chemotherapy in AML patients is warranted, in order to aid in risk-adapted treatment decisions as novel treatments are ...

    Authors: Ingrid Jakobsen, Max Sundkvist, Niclas Björn, Henrik Gréen and Kourosh Lotfi
    Citation: BMC Genomics 2022 23:752
  22. The dung beetle Phelotrupes auratus is a holometabolous insect belonging to the order Coleoptera, and it is widely distributed in Japan. The P. auratus habitat depends on herbivores. P. auratus eats the dung of t...

    Authors: Takuma Sakamoto, Shun Sinzeki, Shunsuke Kakinuma, Eri Ishihara and Hiroko Tabunoki
    Citation: BMC Genomics 2022 23:751
  23. Flowering time and active accumulated temperature (AAT) are two key factors that limit the expanded production especially for soybean across different regions. Wild soybean provides an important germplasm for ...

    Authors: Guang Yang, Wei Li, Chao Fan, Miao Liu, Jianxin Liu, Wenwei Liang, Ling Wang, Shufeng Di, Chao Fang, Haiyang Li, Guohua Ding, Yingdong Bi and Yongcai Lai
    Citation: BMC Genomics 2022 23:749
  24. Shotgun metagenome analysis provides a robust and verifiable method for comprehensive microbiome analysis of fungal, viral, archaeal and bacterial taxonomy, particularly with regard to visualization of read ma...

    Authors: Ilona Rosenboom, Tobias Scheithauer, Fabian C. Friedrich, Sophia Pörtner, Lisa Hollstein, Marie-Madlen Pust, Konstantinos Sifakis, Tom Wehrbein, Bodo Rosenhahn, Lutz Wiehlmann, Patrick Chhatwal, Burkhard Tümmler and Colin F. Davenport
    Citation: BMC Genomics 2022 23:748
  25. Understanding the micro-­evolutionary response of populations to demographic declines is a major goal in evolutionary and conservation biology. In small populations, genetic drift can lead to an accumulation o...

    Authors: Johanna von Seth, Tom van der Valk, Edana Lord, Hanna Sigeman, Remi-André Olsen, Michael Knapp, Olga Kardailsky, Fiona Robertson, Marie Hale, Dave Houston, Euan Kennedy, Love Dalén, Karin Norén, Melanie Massaro, Bruce C. Robertson and Nicolas Dussex
    Citation: BMC Genomics 2022 23:747
  26. So far, a lot of binning approaches have been intensively developed for untangling metagenome-assembled genomes (MAGs) and evaluated by two main strategies. The strategy by comparison to known genomes prevails...

    Authors: Ziyao Wu, Yuxiao Wang, Jiaqi Zeng and Yizhuang Zhou
    Citation: BMC Genomics 2022 23:746
  27. Here we respond to Zhou (BMC Genomics 21:734, 2020) “Combined Transcriptome and Metabolome analysis of Pitaya fruit unveiled the mechanisms underlying peel and pulp color formation” published in BMC Genomics. ...

    Authors: Boas Pucker and Samuel F. Brockington
    Citation: BMC Genomics 2022 23:739

    The Correspondence to this article has been published in BMC Genomics 2022 23:740

    The Research article to this article has been published in BMC Genomics 2020 21:734

  28. Plums are one of the most important economic crops of the Rosaceae family and are produced all over the world. China has many local varieties, but the genomic information is limited for genetic studies. Here, ...

    Authors: Yicen Xu, Bo Fang, Jingling Li, Yuanwei Wang, Jingting Liu, Chang Liu and Jie Yu
    Citation: BMC Genomics 2022 23:745
  29. Alternative splicing (AS) is an important channel for gene expression regulation and protein diversification, in addition to a major reason for the considerable differences in the number of genes and proteins ...

    Authors: Cong Gao, Shuai Lu, Rong Zhou, Junjie Ding, Jialiang Fan, Binying Han, Moxian Chen, Baohua Wang and Yunying Cao
    Citation: BMC Genomics 2022 23:744
  30. The bZIP gene family has important roles in various biological processes, including development and stress responses. However, little information about this gene family is available for Wheel Wingnut (Cyclocarya ...

    Authors: Yu-Tian Tao, Lu-Xi Chen, Jie Jin, Zhao-Kui Du and Jun-Min Li
    Citation: BMC Genomics 2022 23:743
  31. Pantoea agglomerans DAPP-PG 734 was isolated as endophyte from knots (tumors) caused by Pseudomonas savastanoi pv. savastanoi DAPP-PG 722 in olive trees. To understand the plant pathogen-endophyte interaction on ...

    Authors: Arburon Sulja, Joël F. Pothier, Jochen Blom, Chiaraluce Moretti, Roberto Buonaurio, Fabio Rezzonico and Theo H. M. Smits
    Citation: BMC Genomics 2022 23:742
  32. Nematodes are a major group of soil inhabiting organisms. Heterorhabditis nematodes are insect-pathogenic nematodes and live in a close symbiotic association with Photorhabdus bacteria. Heterorhabditis-Photorhabd...

    Authors: Chaitra G. Bhat, Roli Budhwar, Jeffrey Godwin, Adler R. Dillman, Uma Rao and Vishal S. Somvanshi
    Citation: BMC Genomics 2022 23:741
  33. Mytilidae, also known as marine mussels, are widely distributed in the oceans worldwide. Members of Mytilidae show a tremendous range of ecological adaptions, from the species distributed in freshwater to thos...

    Authors: Baojun Zhao, Shengtao Gao, Mingyang Zhao, Hongyu Lv, Jingyu Song, Hao Wang, Qifan Zeng and Jing Liu
    Citation: BMC Genomics 2022 23:738
  34. The hair coat is available for the yak to live in the harsh environment of the plateau. Besides, improving the hair production of yak is necessary for its textile industry development. Hair grows from hair fol...

    Authors: Xuelan Zhou, Pengjia Bao, Xiaolan Zhang, Xian Guo, Chunnian Liang, Min Chu, Xiaoyun Wu and Ping Yan
    Citation: BMC Genomics 2022 23:737
  35. Soil salinity is a problem in more than 100 countries across all continents. It is one of the abiotic stress that threatens agriculture the most, negatively affecting crops and reducing productivity. Transcrip...

    Authors: Thalita Massaro Malheiros Ferreira, Jaire Alves Ferreira Filho, André Pereira Leão, Carlos Antônio Ferreira de Sousa and Manoel Teixeira Jr. Souza
    Citation: BMC Genomics 2022 23:735
  36. Polyamines (PAs) are considered promising biostimulants that have diverse key roles during growth and stress responses in plants. Nevertheless, the molecular basis of these roles by PAs has not been completely...

    Authors: Heba Talat Ebeed
    Citation: BMC Genomics 2022 23:734
  37. The growing availability of genomic resources in radiata pine paves the way for significant advances in fundamental and applied genomic research. We constructed robust high-density linkage maps based on exome-...

    Authors: Jules S. Freeman, Gancho T. Slavov, Jakob B. Butler, Tancred Frickey, Natalie J. Graham, Jaroslav Klápště, John Lee, Emily J. Telfer, Phillip Wilcox and Heidi S. Dungey
    Citation: BMC Genomics 2022 23:731
  38. The rapid growth of annual shoots is detrimental to peach production. While gibberellin (GA) promotes the rapid growth of peach shoots, there is limited information on the identity and expression profiles of G...

    Authors: Mengmeng Zhang, Yangtao Ma, Xianbo Zheng, Bin Tan, Xia Ye, Wei Wang, Langlang Zhang, Jidong Li, Zhiqian Li, Jun Cheng and Jiancan Feng
    Citation: BMC Genomics 2022 23:730
  39. Crustose coralline algae (CCA) are calcifying red macroalgae that play important ecological roles including stabilisation of reef frameworks and provision of settlement cues for a range of marine invertebrates...

    Authors: Tessa M. Page, Carmel McDougall, Ido Bar and Guillermo Diaz-Pulido
    Citation: BMC Genomics 2022 23:729
  40. Isolates of Serratia entomophila and S. proteamaculans (Yersiniaceae) cause disease specific to the endemic New Zealand pasture pest, Costelytra giveni (Coleoptera: Scarabaeidae). Previous genomic profiling has s...

    Authors: Amy L. Vaughan, Eric Altermann, Travis R. Glare and Mark R. H. Hurst
    Citation: BMC Genomics 2022 23:728
  41. As one of the microelements, nitrogen play essential roles in cereal production. Although the use of chemical fertilizers has significantly improved the yield of wheat, it has also caused increasingly adverse ...

    Authors: Hanxia Wang, Qiaoyun Ma, Fuhua Shan, Liping Tian, Jie Gong, Wei Quan, Weibing Yang, Qiling Hou, Fengting Zhang and Shengquan Zhang
    Citation: BMC Genomics 2022 23:727
  42. Salt stress is one of the most destructive environmental factors limiting crop growth and development. MicroRNAs (miRNAs) are a class of conserved endogenous small non-coding RNAs, playing the crucial role in ...

    Authors: Guang Yang, Wenqiu Pan, Rui Cao, Qifan Guo, Yue Cheng, Qinlong Zhao, Licao Cui and Xiaojun Nie
    Citation: BMC Genomics 2022 23:724

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