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  1. Transcription factors (TFs) exhibit heterogeneous DNA-binding specificities in individual cells and whole organisms under natural conditions, and de novo motif discovery usually provides multiple motifs, even ...

    Authors: Saeko Tahara, Takaho Tsuchiya, Hirotaka Matsumoto and Haruka Ozaki
    Citation: BMC Genomics 2023 24:597
    Content type: Research Published on:

  2. Genome-wide association studies (GWAS) are important for the acceleration of crop improvement through knowledge of marker-trait association (MTA). This report used DArT SNP markers to successfully perform GWAS...

    Authors: Charles U. Uba, Happiness O. Oselebe, Abush A. Tesfaye and Wosene G. Abtew
    Citation: BMC Genomics 2023 24:593
    Content type: Research Published on:

  3. Antigenic stimulation through cross-linking the IgE receptor and epithelial cell-derived cytokine IL-33 are potent stimuli of mast cell (MC) activation. Moreover, IL-33 primes a variety of cell types, includin...

    Authors: Junfeng Gao, Yapeng Li, Xiaoyu Guan, Zahraa Mohammed, Gregorio Gomez, Yvonne Hui, Dianzheng Zhao, Carole A. Oskeritzian and Hua Huang
    Citation: BMC Genomics 2023 24:592
    Content type: Research Published on:

  5. Receptivity of the uterus is essential for embryo implantation and progression of mammalian pregnancy. Acquisition of receptivity involves major molecular and cellular changes in the endometrial lining of the ...

    Authors: Hon Yeung Chan, Ha M. Tran, James Breen, John E. Schjenken and Sarah A. Robertson
    Citation: BMC Genomics 2023 24:590
    Content type: Research Published on:

  6. The Q-426 strain isolated from compost samples has excellent antifungal activities against a variety of plant pathogens. However, the complete genome of Q-426 is still unclear, which limits the potential appli...

    Authors: Lulu Wang, Ruochen Fan, Haodi Ma, Yu Sun, Yangzhu Huang, Yuxin Wang, Qinfeng Guo, Xinxiu Ren, Lukai Xu, Jing Zhao, Liying Zhang, Yongbin Xu, Liming Jin, Yuesheng Dong and Chunshan Quan
    Citation: BMC Genomics 2023 24:589
    Content type: Research Published on:

  7. The fruits of Gardenia are rich in flavonoids and geniposides, which have various pharmacological effects such as antioxidant, anti-inflammatory and anticancer. In this study, we analyzed the transcriptome and...

    Authors: Jianrong Chen, Weizhuo Tang, Chunyan Li, Ding Kuang, Xiaojiang Xu, Yuan Gong, Fang Liu and Song Gao
    Citation: BMC Genomics 2023 24:588
    Content type: Research Published on:

  8. Developing high yielding varieties is a major challenge for breeders tackling the challenges of climate change in agriculture. The panicle (inflorescence) architecture of rice is one of the key components of y...

    Authors: Hélène Adam, Andrés Gutiérrez, Marie Couderc, François Sabot, Fabrice Ntakirutimana, Julien Serret, Julie Orjuela, James Tregear, Stefan Jouannic and Mathias Lorieux
    Citation: BMC Genomics 2023 24:587
    Content type: Research Published on:

  11. B-box (BBX) proteins play important roles in regulating plant growth, development, and abiotic stress responses. BBX family genes have been identified and functionally characterized in many plant species, but ...

    Authors: Xiaoming Liu, Wenying Sun, Bin Ma, Yan Song, Qingxun Guo, Lianxia Zhou, Kuishen Wu, Xinsheng Zhang and Chunyu Zhang
    Citation: BMC Genomics 2023 24:584
    Content type: Research Published on:

  12. Restorative regeneration, the capacity to reform a lost body part following amputation or injury, is an important and still poorly understood process in animals. Annelids, or segmented worms, show amazing rege...

    Authors: Louis Paré, Loïc Bideau, Loeiza Baduel, Caroline Dalle, Médine Benchouaia, Stephan Q. Schneider, Lucie Laplane, Yves Clément, Michel Vervoort and Eve Gazave
    Citation: BMC Genomics 2023 24:583
    Content type: Research Published on:

  13. Several phytopathogens produce small non-coding RNAs of approximately 18–30 nucleotides (nt) which post-transcriptionally regulate gene expression. Commonly called small RNAs (sRNAs), these small molecules wer...

    Authors: Roshan Regmi, Toby E. Newman, Yuphin Khentry, Lars G. Kamphuis and Mark C. Derbyshire
    Citation: BMC Genomics 2023 24:582
    Content type: Research Published on:

  14. Rapid and accurate pathogen identification is required for disease management. Compared to sequencing entire genomes, targeted sequencing may be used to direct sequencing resources to genes of interest for mic...

    Authors: Pei-Ling Yu, James C. Fulton, Owen H. Hudson, Jose C. Huguet-Tapia and Jeremy T. Brawner
    Citation: BMC Genomics 2023 24:581
    Content type: Research Published on:

  15. Phenotypic plasticity is a crucial adaptive mechanism that enables organisms to modify their traits in response to changes in their environment. Predator-induced defenses are an example of phenotypic plasticit...

    Authors: Tae-June Choi, Seung-Min Han, Adeel Malik and Chang-Bae Kim
    Citation: BMC Genomics 2023 24:580
    Content type: Research Published on:

  16. The characteristic pink-reddish color in the salmonids fillet is an important, appealing quality trait for consumers and producers. The color results from diet supplementation with carotenoids, which accounts ...

    Authors: Ridwan O. Ahmed, Ali Ali, Tim Leeds and Mohamed Salem
    Citation: BMC Genomics 2023 24:579
    Content type: Research Published on:

  17. Y-STR polymorphisms are useful in tracing genealogy and understanding human origins and migration history. This study aimed to fill a knowledge gap in the genetic diversity, structure, and haplogroup distribut...

    Authors: Wenqian Song, Shihang Zhou, Weijian Yu, Yaxin Fan and Xiaohua Liang
    Citation: BMC Genomics 2023 24:578
    Content type: Research Published on:

  18. The mechanism underlying cognitive impairment after hearing loss (HL) remains unclear. N6-methyladenosine (m6A) is involved in many neurodegenerative diseases; however, its role in cognitive impairment after H...

    Authors: Xuehua Zhou, Lin Jin, Yufeng Li, Yiru Wang, Wen Li and Xia Shen
    Citation: BMC Genomics 2023 24:577
    Content type: Research Published on:

  19. Spinal Muscular Atrophy (SMA) and Amyotrophic Lateral Sclerosis (ALS) share phenotypic and molecular commonalities, including the fact that they can be caused by mutations in ubiquitous proteins involved in RN...

    Authors: Marina L. Garcia-Vaquero, Marjorie Heim, Barbara Flix, Marcelo Pereira, Lucile Palin, Tânia M. Marques, Francisco R. Pinto, Javier de Las Rivas, Aaron Voigt, Florence Besse and Margarida Gama-Carvalho
    Citation: BMC Genomics 2023 24:576
    Content type: Research Published on:

  20. Comparative genomics is the comparison of genetic information within and across organisms to understand the evolution, structure, and function of genes, proteins, and non-coding regions (Sivashankari and Shanm...

    Authors: Kristin Bornstein, Gary Gryan, E. Sally Chang, Aron Marchler-Bauer and Valerie A. Schneider
    Citation: BMC Genomics 2023 24:575
    Content type: Review Published on:

  21. Super-enhancers (SEs), which activate genes involved in cell-type specificity, have mainly been defined as genomic regions with top-ranked enrichment(s) of histone H3 with acetylated K27 (H3K27ac) and/or trans...

    Authors: Nando D. Das, Jen-Chien Chang, Chung-Chau Hon, S. Thomas Kelly, Shinsuke Ito, Marina Lizio, Bogumil Kaczkowski, Hisami Watanabe, Keisuke Katsushima, Atsushi Natsume, Haruhiko Koseki, Yutaka Kondo, Aki Minoda and Takashi Umehara
    Citation: BMC Genomics 2023 24:574
    Content type: Research Published on:

  22. Understanding the genomic features of livestock is essential for successful breeding programs and conservation. This information is scarce for local goat breeds in Egypt. In the current study, genomic regions ...

    Authors: Ahmed M. Sallam, Henry Reyer, Klaus Wimmers, Francesca Bertolini, Adel Aboul-Naga, Camila U. Braz and Alaa Emara Rabee
    Citation: BMC Genomics 2023 24:573
    Content type: Research Published on:

  23. Telomeres are the nucleoprotein complexes that physically cap the ends of eukaryotic chromosomes. Most plants possess Arabidopsis-type telomere sequences (TSs). In addition to terminal TSs, more diverse interstit...

    Authors: Alexander Belyayev, Ruslan Kalendar, Jiřina Josefiová, Ladislava Paštová, Farzaneh Habibi, Václav Mahelka, Bohumil Mandák and Karol Krak
    Citation: BMC Genomics 2023 24:572
    Content type: Research Published on:

  24. Malvaceae is an economically important plant family of 4,225 species in nine subfamilies. Phylogenetic relationships among the nine subfamilies have always been controversial, especially for Brownlowioideae, w...

    Authors: Mingsong Wu, Liu He, Guangyao Ma, Kai Zhang, Haijian Yang and Xinquan Yang
    Citation: BMC Genomics 2023 24:571
    Content type: Research Published on:

  25. The eight phenotypically distinguishable indigenous chicken breeds in Guizhou province of China are great resources for high-quality development of the poultry industry in China. However, their full value and ...

    Authors: Dan Xu, Wei Zhu, Youhao Wu, Shuo Wei, Gang Shu, Yaofu Tian, Xiaohui Du, Jigao Tang, Yulong Feng, Gemin Wu, Xue Han and Xiaoling Zhao
    Citation: BMC Genomics 2023 24:570
    Content type: Research Published on:

  26. Developing genomic resources for a diverse range of species is an important step towards understanding the mechanisms underlying complex traits. Specifically, organisms that exhibit unique and accessible pheno...

    Authors: Samantha K. Smith, Paul W. Frazel, Alireza Khodadadi-Jamayran, Paul Zappile, Christian Marier, Mariam Okhovat, Stuart Brown, Michael A. Long, Adriana Heguy and Steven M. Phelps
    Citation: BMC Genomics 2023 24:569
    Content type: Research Published on:

  27. Mammals are potential hosts for many infectious diseases. However, studies on the viral communities of herbivorous mammals in the Northwest Plateau are limited. Here, we studied the viral communities of herbiv...

    Authors: Jiamin Pan, Likai Ji, Haisheng Wu, Xiaochun Wang, Yan Wang, Yan Wu, Shixing Yang, Quan Shen, Yuwei Liu, Wen Zhang, Keshan Zhang and Tongling Shan
    Citation: BMC Genomics 2023 24:568
    Content type: Research Published on:

  28. Metabolic-dysfunction-associated fatty liver disease (MAFLD) is a comorbidity that generally increases in people living with HIV (PLWH). This condition is usually accompanied by persistent inflammation and pre...

    Authors: Elena Moreno, Javier Martínez-Sanz, Rosa Martín-Mateos, Jorge Díaz-Álvarez, Sergio Serrano-Villar, Diego Burgos-Santamaría, Laura Luna, María Jesús Vivancos, Ana Moreno-Zamora, María Jesús Pérez-Elías, Santiago Moreno, Fernando Dronda, María Luisa Montes and Matilde Sánchez-Conde
    Citation: BMC Genomics 2023 24:567
    Content type: Research Published on:

  29. Olive oil contains monounsaturated oleic acid up to 83% and phenolic compounds, making it an excellent source of fat. Due to its economic importance, the quantity and quality of olive oil should be improved in...

    Authors: AliAkbar Asadi, Vahid Shariati, Soraya Mousavi, Roberto Mariotti and Mehdi Hosseini Mazinani
    Citation: BMC Genomics 2023 24:566
    Content type: Research Published on:

  30. The vaginal microenvironment of healthy women has a predominance of Lactobacillus crispatus, L. iners, L. gasseri, and L. jensenii. The genomic repertoire of the strains of each of the species associated with the...

    Authors: Anupam Bhattacharya, Sushmita Das, Maloyjo Joyraj Bhattacharjee, Ashis K. Mukherjee and Mojibur Rohman Khan
    Citation: BMC Genomics 2023 24:565
    Content type: Research Published on:

  31. While numerous studies have described the transcriptomes of extracellular vesicles (EVs) in different cellular contexts, these efforts have typically relied on sequencing methods requiring RNA fragmentation, w...

    Authors: Juan-Carlos A. Padilla, Seda Barutcu, Ludovic Malet, Gabrielle Deschamps-Francoeur, Virginie Calderon, Eunjeong Kwon and Eric Lécuyer
    Citation: BMC Genomics 2023 24:564
    Content type: Research Published on:

  32. Ovarian development is an important prerequisite and basis for animal reproduction. In many vertebrates, it is regulated by multiple genes and influenced by sex steroid hormones and environmental factors. Howe...

    Authors: Wenjing Wang, Biao Wu, Zhihong Liu, Xiujun Sun, Liqing Zhou, Wandong Xu, Tao Yu, Yanxin Zheng and Shihao Zhang
    Citation: BMC Genomics 2023 24:563
    Content type: Research Published on:

  33. Selective constraint, the depletion of variation due to negative selection, provides insights into the functional impact of variants and disease mechanisms. However, its characterization in mice, the most comm...

    Authors: George Powell, Michelle M. Simon, Sara Pulit, Ann-Marie Mallon and Cecilia M. Lindgren
    Citation: BMC Genomics 2023 24:562
    Content type: Research Published on:

  34. The mitochondria are central in the cellular response to changing environmental conditions resulting from disease states, environmental exposures or normal physiological processes. Although the influences of e...

    Authors: John Lees, Fábio Pèrtille, Pia Løtvedt, Per Jensen and Carlos Guerrero Bosagna
    Citation: BMC Genomics 2023 24:561
    Content type: Research Published on:

  35. Genomic data-based machine learning tools are promising for real-time surveillance activities performing source attribution of foodborne bacteria such as Listeria monocytogenes. Given the heterogeneity of machine...

    Authors: Pierluigi Castelli, Andrea De Ruvo, Andrea Bucciacchio, Nicola D’Alterio, Cesare Cammà, Adriano Di Pasquale and Nicolas Radomski
    Citation: BMC Genomics 2023 24:560
    Content type: Research Published on:

  36. In Alzheimer’s Disease (AD) and other dementias, hippocampal synaptic dysfunction and loss contribute to the progression of memory impairment. Recent analysis of human AD transcriptomes has provided a list of ...

    Authors: Elizabeth B. Wright, Erik G. Larsen, Cecilia M. Coloma-Roessle, Hannah R. Hart and Martha R.C. Bhattacharya
    Citation: BMC Genomics 2023 24:559
    Content type: Research Published on:

  37. Tea plants grown in high-latitude areas are often damaged by extreme freezing temperatures in winter, leading to huge economic losses. Here, the physiological and gene expression characteristics of two tea cul...

    Authors: Jinlei Luo, Shuangjie Huang, Yali Chang, Hui Li and Guiyi Guo
    Citation: BMC Genomics 2023 24:558
    Content type: Research Published on:

  38. Drug-target binding affinity (DTA) prediction is important for the rapid development of drug discovery. Compared to traditional methods, deep learning methods provide a new way for DTA prediction to achieve go...

    Authors: Leiming Xia, Lei Xu, Shourun Pan, Dongjiang Niu, Beiyi Zhang and Zhen Li
    Citation: BMC Genomics 2023 24:557
    Content type: Research Published on:

  39. Cocaine use (CU) is associated with psychiatric and medical diseases. Little is known about the mechanisms of CU-related comorbidities. Findings from preclinical and clinical studies have suggested that CU is ...

    Authors: Youshu Cheng, Amy Justice, Zuoheng Wang, Boyang Li, Dana B. Hancock, Eric O. Johnson and Ke Xu
    Citation: BMC Genomics 2023 24:556
    Content type: Research Published on:

  40. Copy number variation (CNV) is an important source of structural variation in the mammalian genome. CNV assays present a new method to explore the genomic diversity of environmental adaptations in animals and ...

    Authors: Huibin Shi, Taotao Li, Manchun Su, Huihui Wang, Qiao Li, Xia Lang and Youji Ma
    Citation: BMC Genomics 2023 24:555
    Content type: Research Published on:

  41. The Inonotus obliquus mushroom, a wondrous fungus boasting edible and medicinal qualities, has been widely used as a folk medicine and shown to have many potential pharmacological secondary metabolites. The purpo...

    Authors: Jinghua Hao, Xiaoli Wang, Yanhua Shi, Lingjun Li, Jinxin Chu, Junjie Li, Weiping Lin, Tao Yu and Dianhai Hou
    Citation: BMC Genomics 2023 24:554
    Content type: Research Published on:

  42. Black spot disease caused by the necrotrophic fungus Alternaria spp. is one of the most devastating diseases affecting Chrysanthemum morifolium. There is currently no effective way to prevent chrysanthemum black ...

    Authors: Shuhuan Zhang, Weihao Miao, Ye Liu, Jiafu Jiang, Sumei Chen, Fadi Chen and Zhiyong Guan
    Citation: BMC Genomics 2023 24:553
    Content type: Research Published on:

  43. Pleurotus giganteus is a commonly cultivated mushroom with notable high temperature resistance, making it significant for the growth of the edible fungi industry in the tropics. Despite its practical importance,,...

    Authors: Yang Yang, Yongru Pian, Jingyi Li, Lin Xu, Zhu Lu, Yueting Dai and Qinfen Li
    Citation: BMC Genomics 2023 24:552
    Content type: Research Published on:

  44. Producing animal protein while reducing the animal’s impact on the environment, e.g., through improved feed efficiency and lowered methane emissions, has gained interest in recent years. Genetic selection is o...

    Authors: Melanie K. Hess, Hannah E. Hodgkinson, Andrew S. Hess, Larissa Zetouni, Juliana C. C. Budel, Hannah Henry, Alistair Donaldson, Timothy P. Bilton, Tracey C. van Stijn, Michelle R. Kirk, Ken G. Dodds, Rudiger Brauning, Alan F. McCulloch, Sharon M. Hickey, Patricia L. Johnson, Arjan Jonker…
    Citation: BMC Genomics 2023 24:551
    Content type: Research Published on:

  45. Phosphorus is one of the essential nutrients for plant growth. Phosphate-solubilizing microorganisms (PSMs) can alleviate available P deficiency and enhance plant growth in an eco-friendly way. Although ammoni...

    Authors: Zhaomei Lu, Sheng He, Muhammad Kashif, Zufan Zhang, Shuming Mo, Guijiao Su, Linfang Du and Chengjian Jiang
    Citation: BMC Genomics 2023 24:550
    Content type: Research Published on:

  46. E2 ubiquitin conjugating enzymes and E3 ubiquitin ligases play important roles in the growth and development of plants and animals. To date, the systematic analysis of E2 and E3 genes in Rhodophyta is limited....

    Authors: Qiong Wu, Jingru Yin, Min Jiang, Jingyu Zhang and Zhenghong Sui
    Citation: BMC Genomics 2023 24:549
    Content type: Research Published on:

  47. Mycoplasmopsis (M.) bovis, the agent of mastitis, pneumonia, and arthritis in cattle, harbors a small genome of approximately 1 Mbp. Combining data from Illumina and Nanopore technologies, we sequenced and assemb...

    Authors: Sandra Triebel, Konrad Sachse, Michael Weber, Martin Heller, Celia Diezel, Martin Hölzer, Christiane Schnee and Manja Marz
    Citation: BMC Genomics 2023 24:548
    Content type: Research Published on:

  48. Genetic diversity and heterogeneous genomic signatures in marine fish populations may result from selection pressures driven by the strong effects of environmental change. Nearshore fishes are often exposed to...

    Authors: Xiang Zhao, Tianlun Zheng, Tianxiang Gao and Na Song
    Citation: BMC Genomics 2023 24:547
    Content type: Research Published on:

  49. Haemorrhagic septicaemia (HS) is a highly fatal and predominant disease in livestock, particularly cattle and buffalo in the tropical regions of the world. Pasteurella multocida (P. multocida), serotypes B:2 and ...

    Authors: Sadia Mahboob, Nimat Ullah, Muhammad Farhan Ul Haque, Waqar Rauf, Mazhar Iqbal, Amjad Ali and Moazur Rahman
    Citation: BMC Genomics 2023 24:546
    Content type: Research Published on:

  50. Teleost fish have evolved various adaptations that allow them to tolerate cold water conditions. However, the underlying mechanism of this adaptation is poorly understood in Tibetan Plateau fish. RNA-seq combi...

    Authors: Sijia Liu, Fei Tian, Delin Qi, Hongfang Qi, Yang Wang, Shixiao Xu and Kai Zhao
    Citation: BMC Genomics 2023 24:545
    Content type: Research Published on:

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BMC Genomics

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