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  1. Darjeeling tea is a globally renowned beverage, which faces numerous obstacles in sexual reproduction, such as self-incompatibility, poor seed germination, and viability, as well as issues with vegetative prop...

    Authors: Vivek Kumar Awon, Debabrata Dutta, Saptadipa Banerjee, Soumili Pal and Gaurab Gangopadhyay
    Citation: BMC Genomics 2024 25:207
  2. Pancreatic ductal adenocarcinoma (PDAC) is a lethal malignancy with a five-year survival rate of approximately 10%. Genetic mutations are pivotal drivers in PDAC pathogenesis, but recent investigations also re...

    Authors: Wenrui Han, Detong Shi, Qiu Yang, Xinxin Li, Jian Zhang, Cheng Peng and Fang Yan
    Citation: BMC Genomics 2024 25:206
  3. Immunogenic cell death (ICD) has been identified as regulated cell death, which is sufficient to activate the adaptive immune response. This study aimed to research ICD-related genes and create a gene model to...

    Authors: Xiaobo Wang, Tianxiang Ren, Chuting Liao, Yong Xie and Jing Cao
    Citation: BMC Genomics 2024 25:205
  4. Medicago truncatula, model legume and alfalfa relative, has served as an essential resource for advancing our understanding of legume physiology, functional genetics, and crop improvement traits. Necrotrophic fun...

    Authors: Jacob R. Botkin, Andrew D. Farmer, Nevin D. Young and Shaun J. Curtin
    Citation: BMC Genomics 2024 25:204
  5. Firmiana danxiaensis is a critically endangered and ecologically important tree currently only found in four locations in Danxia or Karst habitats in northern Guangdong Province, China. The specialized habitat pr...

    Authors: Ya-li Li, Li-yun Nie, Shuang-wen Deng, Lei Duan, Zheng-feng Wang, Joseph L.M. Charboneau, Boon-Chuan Ho and Hong-feng Chen
    Citation: BMC Genomics 2024 25:203
  6. Transitions from sexual to asexual reproduction are common in eukaryotes, but the underlying mechanisms remain poorly known. The pea aphid—Acyrthosiphon pisum—exhibits reproductive polymorphism, with cyclical par...

    Authors: M. D. Huguet, S. Robin, S. Hudaverdian, S. Tanguy, N. Leterme-Prunier, R. Cloteau, S. Baulande, P. Legoix-Né, F. Legeai, J.-C. Simon, J. Jaquiéry, D. Tagu and G. Le Trionnaire
    Citation: BMC Genomics 2024 25:202
  7. To gain a deeper understanding of the metabolic differences within and outside the body, as well as changes in transcription levels following estrus in yaks, we conducted transcriptome and metabolome analyses ...

    Authors: Huangqing Zhao, Yongzhen Huang, Shi Shu, Guowen Wang, Changqi Fu, Rong Huang, Jun Zhang, Huawei Su, Yang He, Chuzhao Lei, Lei Du, Jiahao Zhao and Wei Peng
    Citation: BMC Genomics 2024 25:201
  8. Calmodulins (CaMs)/CaM-like proteins (CMLs) are crucial Ca2+-binding sensors that can decode and transduce Ca2+ signals during plant development and in response to various stimuli. The CaM/CML gene family has bee...

    Authors: Dong Yang, Ting Chen, Yushuang Wu, Huiquan Tang, Junyi Yu, Xiaoqiu Dai, Yixiong Zheng, Xiaorong Wan, Yong Yang and Xiaodan Tan
    Citation: BMC Genomics 2024 25:200
  9. Abiotic stresses in plants include all the environmental conditions that significantly reduce yields, like drought and heat. One of the most significant effects they exert at the cellular level is the accumula...

    Authors: Marco Moroldo, Nicolas Blanchet, Harold Duruflé, Stéphane Bernillon, Thierry Berton, Olivier Fernandez, Yves Gibon, Annick Moing and Nicolas B. Langlade
    Citation: BMC Genomics 2024 25:199
  10. Cervical cancer (CC) causes more than 311,000 deaths annually worldwide. The integration of human papillomavirus (HPV) is a crucial genetic event that contributes to cervical carcinogenesis. Despite HPV DNA in...

    Authors: Zhijie Wang, Chen Liu, Wanxin Liu, Xinyi Lv, Ting Hu, Fan Yang, Wenhui Yang, Liang He and Xiaoyuan Huang
    Citation: BMC Genomics 2024 25:198
  11. In cold and temperate zones, seasonal reproduction plays a crucial role in the survival and reproductive success of species. The photoperiod influences reproductive processes in seasonal breeders through the h...

    Authors: Jianye Chang, Yanglong Xu, Yuting Fu, Jiaxin Liu, Danli Jiang, Jianqiu Pan, Hongjia Ouyang, Wenjun Liu, Jin Xu, Yunbo Tian, Yunmao Huang, Jue Ruan and Xu Shen
    Citation: BMC Genomics 2024 25:197
  12. Lumpy skin disease virus (LSDV) belongs to the genus Capripoxvirus and family Poxviridae. LSDV was endemic in most of Africa, the Middle East and Turkey, but since 2015, several outbreaks have been reported in ot...

    Authors: Priya Yadav, Ankeet Kumar, Sujith S Nath, Yashas Devasurmutt, Geetha Shashidhar, Madhvi Joshi, Apurvasinh Puvar, Sonal Sharma, Janvi Raval, Rameshchandra Pandit, Priyank Chavda, Sudeep Nagaraj, Yogisharadhya Revanaiah, Deepak Patil, S K Raval, Jigar Raval…
    Citation: BMC Genomics 2024 25:196
  13. Lipoxygenase (LOX) is a multifunctional enzyme that is primarily related to plant organ growth and development, biotic and abiotic stress responses, and production of flavor-associated metabolites. In higher p...

    Authors: Lei Xu, Xiaoxi Zhu, Fengyan Yi, Yajiao Liu, Bilig Sod, Mingna Li, Lin Chen, Junmei Kang, Qingchuan Yang and Ruicai Long
    Citation: BMC Genomics 2024 25:195
  14. Bone morphogenetic proteins (BMPs) are part of the transforming growth factor beta (TGF-β) superfamily and play crucial roles in bone development, as well as in the formation and maintenance of various organs. Tr...

    Authors: Yizheng Zhang, Jinhui Yu, Rui Han, Zhigang Ma, Meng Zhang, Yikai Li, Yongtao Tang, Guoxing Nie and Chuanjiang Zhou
    Citation: BMC Genomics 2024 25:194
  15. The application of biotechnologies which make use of genetic markers in chicken breeding is developing rapidly. Diversity Array Technology (DArT) is one of the current Genotyping-By-Sequencing techniques allow...

    Authors: Valentin Mujyambere, Kwaku Adomako and Oscar Simon Olympio
    Citation: BMC Genomics 2024 25:193
  16. Control and elimination of schistosomiasis is an arduous task, with current strategies proving inadequate to break transmission. Exploration of genetic approaches to interrupt Schistosoma mansoni transmission, th...

    Authors: Tom Pennance, Javier Calvelo, Jacob A. Tennessen, Ryan Burd, Jared Cayton, Stephanie R. Bollmann, Michael S. Blouin, Johannie M. Spaan, Federico G. Hoffmann, George Ogara, Fredrick Rawago, Kennedy Andiego, Boaz Mulonga, Meredith Odhiambo, Eric S. Loker, Martina R. Laidemitt…
    Citation: BMC Genomics 2024 25:192
  17. Bacterial wilt caused by Ralstonia solanacearum species complex (RSSC) is one of the devastating diseases in crop production, seriously reducing the yield of crops. R. pseudosolanacearum, is known for its broad i...

    Authors: Shanwen Ding, Zijun Ma, Lin Yu, Guobing Lan, Yafei Tang, Zhenggang Li, Zifu He and Xiaoman She
    Citation: BMC Genomics 2024 25:191
  18. Non-alcoholic fatty liver disease (NAFLD) has rapidly become the most common cause of chronic liver disease in children and adolescents, but its etiology remains largely unknown. Adrenarche is a critical phase...

    Authors: Haoqing Li, Yingyu Liu, Fengyan Meng, Junan Chen and Xingfa Han
    Citation: BMC Genomics 2024 25:190
  19. CRISPR-Cas9 technology has advanced in vivo gene therapy for disorders like hemophilia A, notably through the successful targeted incorporation of the F8 gene into the Alb locus in hepatocytes, effectively cur...

    Authors: Juan-Juan Zhao, Xin-Yu Sun, Sai-Ning Tian, Zong-Ze Zhao, Meng-Di Yin, Mei Zhao, Feng Zhang, Si-Ang Li, Zhi-Xue Yang, Wei Wen, Tao Cheng, An Gong, Jian-Ping Zhang and Xiao-Bing Zhang
    Citation: BMC Genomics 2024 25:189
  20. Haemonchus contortus (H. contortus) is the most common parasitic nematode in ruminants and is prevalent worldwide. H. contortus resistance to albendazole (ABZ) hinders the efficacy of anthelmintic drugs, but litt...

    Authors: Xindi Chen, Tengyu Wang, Wenrui Guo, Xu Yan, Huilin Kou, Yu Yu, Chunxia Liu, Wa Gao, Wenlong Wang and Rui Wang
    Citation: BMC Genomics 2024 25:188
  21. Whole exome sequencing (WES) and whole genome sequencing (WGS) have become standard methods in human clinical diagnostics as well as in population genomics (POPGEN). Blood-derived genomic DNA (gDNA) is routine...

    Authors: Katerina Kvapilova, Pavol Misenko, Jan Radvanszky, Ondrej Brzon, Jaroslav Budis, Juraj Gazdarica, Ondrej Pos, Marie Korabecna, Martin Kasny, Tomas Szemes, Petr Kvapil, Jan Paces and Zbynek Kozmik
    Citation: BMC Genomics 2024 25:187
  22. Venom systems are ideal models to study genetic regulatory mechanisms that underpin evolutionary novelty. Snake venom glands are thought to share a common origin, but there are major distinctions between venom...

    Authors: Cassandra M. Modahl, Summer Xia Han, Jory van Thiel, Candida Vaz, Nathan L. Dunstan, Seth Frietze, Timothy N. W. Jackson, Stephen P. Mackessy and R. Manjunatha Kini
    Citation: BMC Genomics 2024 25:186
  23. Alpaca is a domestic South American camelid probably arising from the domestication of two wild camelids, the vicugna and the guanaco. Two phenotypes are described for alpaca, known as huacaya and suri. Huacay...

    Authors: Stefano Pallotti, Matteo Picciolini, Giovanni Deiana, Dario Pediconi, Marco Antonini, Valerio Napolioni and Carlo Renieri
    Citation: BMC Genomics 2024 25:185
  24. Almost all extant organisms use the same, so-called canonical, genetic code with departures from it being very rare. Even more exceptional are the instances when a eukaryote with non-canonical code can be easi...

    Authors: Fred R. Opperdoes, Kristína Záhonová, Ingrid Škodová-Sveráková, Barbora Bučková, Ľubomíra Chmelová, Julius Lukeš and Vyacheslav Yurchenko
    Citation: BMC Genomics 2024 25:184
  25. Ovarian cancer (OC) has the worst prognosis among gynecological malignancies, most of which are found to be in advanced stage. Cell reduction surgery based on platinum-based chemotherapy is the current standar...

    Authors: Wei Li, Limei Huang, Nana Qi, Qinle Zhang and Zailong Qin
    Citation: BMC Genomics 2024 25:183
  26. Homeodomain-leucine zipper (HD-Zip) transcription factors are plant-specific and play important roles in plant defense against environmental stresses. Identification and functional studies have been carried ou...

    Authors: Yujiao Wang, Hongjuan Wang, Chun Yu, Xiaoming Yan, Jiasong Chu, Benli Jiang and Jiabao Zhu
    Citation: BMC Genomics 2024 25:182
  27. Next-generation Sequencing (NGS) combined with bioinformatic analyses constitutes a powerful approach for identifying and characterizing previously unknown viral genomes. In this study, leaf samples from bitte...

    Authors: Shahrbanou Ghorani, Hossein Massumi, Samin H. Farhangi, Mehdi Mansouri, Jahangir Heydarnejad and Akbar Hosseinipour
    Citation: BMC Genomics 2024 25:181
  28. Pecan scab is a devastating disease that causes damage to pecan (Carya illinoinensis (Wangenh.) K. Koch) fruit and leaves. The disease is caused by the fungus Venturia effusa (G. Winter) and the main management p...

    Authors: Jordan Brungardt, Yanina Alarcon, Jason Shiller, Carolyn Young, Maria J. Monteros, Jennifer J. Randall and Clive H. Bock
    Citation: BMC Genomics 2024 25:180
  29. Gene expression pattern is associated with biological phenotype and is widely used in exploring gene functions. Its evolution is also crucial in understanding species speciation and divergence. The genus Gossy...

    Authors: Yuqing Wu, Rongnan Sun, Tong Huan, Yanyan Zhao, Dongliang Yu and Yuqiang Sun
    Citation: BMC Genomics 2024 25:179
  30. Acute Hepatopancreatic Necrosis Disease (AHPND) causes significant mortality in shrimp aquaculture. The infection is primarily instigated by Vibrio parahaemolyticus (Vp) strains carrying a plasmid encoding the bi...

    Authors: Marieke Vandeputte, Sieglinde Coppens, Peter Bossier, Nick Vereecke and Daisy Vanrompay
    Citation: BMC Genomics 2024 25:178
  31. Prion diseases, also known as transmissible spongiform encephalopathies (TSEs) remain one of the deleterious disorders, which have affected several animal species. Polymorphism of the prion protein (PRNP) gene ma...

    Authors: Adeniyi C. Adeola, Semiu F. Bello, Abdussamad M. Abdussamad, Rahamon A. M. Adedokun, Sunday C. Olaogun, Nasiru Abdullahi, Akanbi I. Mark, Anyebe B. Onoja, Oscar J. Sanke, Godwin F. Mangbon, Jebi Ibrahim, Philip M. Dawuda, Adebowale E. Salako, Samia Kdidi and Mohamed Habib Yahyaoui
    Citation: BMC Genomics 2024 25:177
  32. Xinjiang Mongolian cattle is an indigenous breed that inhabits the Taklimakan Desert and is characterized by its small body size. However, the genomic diversity, origin, and genetic basis underlying the adapta...

    Authors: Lei Xu, Kaiqing Zhou, Xixia Huang, Hong Chen, Hong Dong and Qiuming Chen
    Citation: BMC Genomics 2024 25:176
  33. Brain diseases pose a significant threat to human health, and various network-based methods have been proposed for identifying gene biomarkers associated with these diseases. However, the brain is a complex sy...

    Authors: Ping Zhang, Weihan Zhang, Weicheng Sun, Jinsheng Xu, Hua Hu, Lei Wang and Leon Wong
    Citation: BMC Genomics 2024 25:175
  34. Alfalfa, an essential forage crop known for its high yield, nutritional value, and strong adaptability, has been widely cultivated worldwide. The yield and quality of alfalfa are frequently jeopardized due to ...

    Authors: Jing Yang, Jiangnan Yi, Shihai Ma, Yafang Wang, Jiaxing Song, Shuo Li, Yueyan Feng, Haoyang Sun, Cai Gao, Rongchen Yang, Zhongxing Li, Yuman Cao and Peizhi Yang
    Citation: BMC Genomics 2024 25:174
  35. There is increasing interest in using intestinal organoids to study complex traits like feed efficiency (FE) and host-microbe interactions. The aim of this study was to investigate differences in the molecular...

    Authors: Ole Madsen, Roxann S.C. Rikkers, Jerry M. Wells, Rob Bergsma, Soumya K. Kar, Nico Taverne, Anja J. Taverne-Thiele, Esther D. Ellen and Henri Woelders
    Citation: BMC Genomics 2024 25:173
  36. The highly eusocial stingless bees are crucial pollinators of native and agricultural ecosystems. Nevertheless, genomic studies within this bee tribe remain scarce. We present the genome assembly of the stingl...

    Authors: Natalia de Souza Araujo, Fernando Ogihara, Pedro Mariano Martins and Maria Cristina Arias
    Citation: BMC Genomics 2024 25:171
  37. ATP-binding cassette (ABC) transporter proteins constitute a plant gene superfamily crucial for growth, development, and responses to environmental stresses. Despite their identification in various plants like...

    Authors: Xiaobing Kou, Zhen Zhao, Xinqi Xu, Chang Li, Juyou Wu and Shaoling Zhang
    Citation: BMC Genomics 2024 25:169
  38. Understanding the molecular underpinnings of phenotypic variations is critical for enhancing poultry breeding programs. The Brazilian broiler (TT) and laying hen (CC) lines exhibit striking differences in body...

    Authors: Renata Erbert Contriciani, Carla Vermeulen Carvalho Grade, Igor Buzzatto-Leite, Fernanda Cristina da Veiga, Mônica Corrêa Ledur, Antonio Reverter, Pamela Almeida Alexandre, Aline Silva Mello Cesar, Luiz Lehmann Coutinho and Lúcia Elvira Alvares
    Citation: BMC Genomics 2024 25:168
  39. The most widely practiced strategy for constructing the deep learning (DL) prediction model for drug resistance of Mycobacterium tuberculosis (MTB) involves the adoption of ready-made and state-of-the-art archite...

    Authors: Yu Wang, Zhonghua Jiang, Pengkuan Liang, Zhuochong Liu, Haoyang Cai and Qun Sun
    Citation: BMC Genomics 2024 25:167
  40. Sugarcane (Saccharum spp.) holds exceptional global significance as a vital crop, serving as a primary source of sucrose, bioenergy, and various by-products. The optimization of sugarcane breeding by fine-tuning ...

    Authors: Hongyan Ding, Xiaoxi Feng, Yuan Yuan, Baiyu Wang, Yuhao Wang and Jisen Zhang
    Citation: BMC Genomics 2024 25:165
  41. Guizhou black goat is one of the indigenous black goat breeds in the southwest region of Guizhou, China, which is an ordinary goat for mutton production. They are characterized by moderate body size, black coa...

    Authors: Lingle Chang, Yundi Zheng, Sheng Li, Xi Niu, Shihui Huang, Qingmeng Long, Xueqin Ran and Jiafu Wang
    Citation: BMC Genomics 2024 25:164
  42. Common wheat (Triticum aestivum L.) is a worldwide cereal crop, which is an integral part of the diets of many countries. In addition, the MYB gene of wheat plays a role in the response to salt stress.

    Authors: Yuanhang Mu, Luxi Shi, Huan Tian, Huaizhi Tian, Jv Zhang, Fusheng Zhao, Qingqin Zhang, Suqin Zhang and Guangdong Geng
    Citation: BMC Genomics 2024 25:163
  43. The Ovar-DRB1 gene, a crucial element of the Major Histocompatibility Complex (MHC) Class II region, initiates adaptive immunity by presenting antigens to T-cells. Genetic diversity in sheep, particularly in MHC ...

    Authors: Bashir Salim, Ryo Nakao, Elisha Chatanga, Olivia Marcuzzi, Muna Ahmed Eissawi, Faisal Almathen, Olivier Hanotte and Guillermo Giovambattista
    Citation: BMC Genomics 2024 25:160
  44. Myoblasts play an important role in muscle growth and repair, but the high glucose environment severely affects their function. The purpose of this study is to explore the potential molecular mechanism of lira...

    Authors: Dongmei Fan, Yunjie Zhang, Lanyu Lu, Fuzai Yin and Bowei Liu
    Citation: BMC Genomics 2024 25:159
  45. Passionfruit (Passiflora edulis) is a significant fruit crop in the commercial sector, owing to its high nutritional and medicinal value. The advent of high-throughput genomics sequencing technology has led to th...

    Authors: Chaowei Yu, Peng Wang, Shengjie Zhang, Jindian Liu, Yingyin Cheng, Songbai Zhang and Zujian Wu
    Citation: BMC Genomics 2024 25:157
  46. DNA damage repair (DDR) may affect tumorigenesis and therapeutic response in hepatocellular carcinoma (HCC). Long noncoding RNAs (LncRNAs) can regulate DDR and play a vital role in maintaining genomic stabilit...

    Authors: Fei Huang, Chunyan Zhang, Wenjing Yang, Yan Zhou, Yihui Yang, Xinrong Yang, Wei Guo and Beili Wang
    Citation: BMC Genomics 2024 25:155

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