Article
Engineering, Chemical
Wanting Li, Jie Cui, Jiafeng Li, Jian Guo, Tao Huang, Jiaojiao Zhang, Hao Hu, Xingquan Liu
Summary: This study collected rice samples from granaries in different directions and storage time. High-throughput ITS sequencing analysis revealed the changes in fungi community during rice storage, with Ascomycota, Basidiomycota, and Mucoromycota as the main fungi present. Aspergillus sp. was the predominant fungi, and other fungi species varied during storage. The study highlighted the importance of improving granary ventilation systems and maintaining a uniform atmosphere to control fungi growth.
Article
Obstetrics & Gynecology
Wanwisa van Dijk, Kasper Derks, Marion Drusedau, Jeroen Meekels, Rebekka Koeck, Rick Essers, Joseph Dreesen, Edith Coonen, Christine de Die-Smulders, Servi J. C. Stevens, Han G. Brunner, Arthur van den Wijngaard, Aimee D. C. Paulussen, Masoud Zamani Esteki
Summary: The study found that using ETS-PGT can reduce the risk of sample switching while increasing detection efficiency and scalability.
HUMAN REPRODUCTION
(2022)
Article
Agriculture, Dairy & Animal Science
Shuqi Xu, Xinhao Mu, Xin Xu, Congying Bi, Jun Ji, Yunchao Kan, Lunguang Yao, Yingzuo Bi, Qingmei Xie
Summary: This study analyzed 23 complete genomes of Chinese strains of duck hepatitis B virus (DHBV) and predicted and analyzed their recombinant events. These data aid in understanding the intergenotypic recombination of HBV and are expected to promote further research on the epidemiology and evolution of DHBV.
Article
Virology
Jianbo Huang, Wenjie Tang, Xvetao Wang, Jun Zhao, Kenan Peng, Xiangang Sun, Shuwei Li, Shengyao Kuang, Ling Zhu, Yuancheng Zhou, Zhiwen Xu
Summary: This study sequenced the complete genome of the pseudorabies virus (PRV) FJ epidemic strain and compared it with other strains. The findings revealed differences between FJ strain and classical Chinese strain, as well as provided insights into the recombination events of PRV. The results have important implications for molecular epidemiology and vaccine development.
Article
Horticulture
Yue Wang, Sheng Zhao, Peng Chen, Yongkang Liu, Zhigang Ma, Waqar Afzal Malik, Zhenghang Zhu, Zhenyu Peng, Haorong Lu, Yanli Chen, Yuxiao Chang
Summary: By studying 162 hollyhock accessions from China, extensive variation and strong correlations among quantitative traits were found. Whole-genome re-sequencing of 32 accessions identified 10,468,760 core single-nucleotide polymorphisms and calculated the average nucleotide diversity to be 0.00397. The results provide valuable information for hollyhock breeding.
Article
Plant Sciences
Malyaj R. Prajapati, Aakansha Manav, Jitender Singh, Pankaj Kumar, Amit Kumar, Ravindra Kumar, Satya Prakash, Virendra Kumar Baranwal
Summary: A study identified a virus named GarV-E in garlic plants in India, and conducted research on it using high-throughput sequencing. Sequence analysis showed a close relationship of this Indian isolate with GarV-E isolates from China. This study is the first report of GarV-E in Indian garlic.
Article
Biochemistry & Molecular Biology
Paul Cachera, Helen Olsson, Hilde Coumou, Mads L. Jensen, Benjamin J. Sanchez, Tomas Strucko, Marcel van den Broek, Jean-Marc Daran, Michael K. Jensen, Nikolaus Sonnenschein, Michael Lisby, Uffe H. Mortensen
Summary: CRI-SPA allows simple and rapid transfer of chromosomal genetic features between different strains of Saccharomyces cerevisiae. It is highly efficient and reproducible, and even allows marker-free transfer of genetic features. The simplicity, speed, and reliability of CRI-SPA make it a versatile tool for studying biological processes at a systems level.
NUCLEIC ACIDS RESEARCH
(2023)
Article
Plant Sciences
Luis Galipienso, Laura Elvira-Gonzalez, Leonardo Velasco, Jose angel Herrera-Vasquez, Luis Rubio
Summary: High-throughput sequencing from symptomatic tomato and pepper plants collected in Panama resulted in obtaining the complete genomes of southern tomato virus and bell pepper endornavirus, as well as almost-complete genomes of three other BPEV isolates. The study revealed significant genetic diversity among the Panamanian BPEV isolates and no direct correlation between geographic and genetic distances for both STV and BPEV. Evolutionary analysis indicated purifying selection in all encoding regions of both viruses and recombination only in BPEV.
Article
Genetics & Heredity
Xianbao Liu, Boxun Li, Jimiao Cai, Tao Shi, Yang Yang, Yanli Feng, Guixiu Huang
Summary: Using multi-locus techniques and gene genealogical concordance analysis, this study investigated the phylogenetic relationships and taxonomic status of the Colletotrichum acutatum species complex from rubber trees. The dominant species was found to be C. australisinense, followed by C. bannaense, with strain YNJH17109 identified as C. laticiphilum. Population structure analysis revealed four populations of C. australisinense, one of which was a mixture of two populations. Genetic recombination was observed within the species complex, and significant differences in morphological characters and virulence levels were found between populations.
FUNGAL GENETICS AND BIOLOGY
(2023)
Article
Veterinary Sciences
Nathalia Cristina Cirone Silva, Yongqiang Yang, Marjory Xavier Rodrigues, Tiago Tomazi, Rodrigo Carvalho Bicalho
Summary: This study genetically characterized S. uberis strains isolated from bovine clinical mastitis, finding that most strains carried multiple virulence determinants and resistance genes. MLST analysis revealed a high genetic diversity among the strains.
BMC VETERINARY RESEARCH
(2021)
Article
Biochemistry & Molecular Biology
Rachel A. Swenie, Brian P. Looney, Yi-Hong Ke, Jorge A. Rojas, Marc A. Cubeta, Gitta J. Langer, Rytas Vilgalys, Patrick B. Matheny
Summary: In this study, a multi-locus pooled sequencing method using PacBio long-read high-throughput sequencing was developed and evaluated. The method successfully recovered multiple sequence variants of fungi species, providing accurate multi-locus sequence data. The method also allowed for the recovery of alleles from polymorphic samples and multi-organism specimens.
MOLECULAR ECOLOGY RESOURCES
(2023)
Article
Microbiology
Peter Alaxin, Lukas Predajna, Adam Achs, Zdeno Subr, Michaela Mrkvova, Miroslav Glasa
Summary: Two genetic groups of HSVd (6A and 7A) were identified in Slovakia, with low intra-group divergence but higher inter-group divergence due to specific mutations. Mixed infection of these variants was also found within single grapevine plants.
Article
Multidisciplinary Sciences
M. Ece Kars, A. Nazli Basak, O. Emre Onat, Kaya Bilguvar, Jungmin Choi, Yuval Itan, Caner Caglar, Robin Palvadeau, Jean-Laurent Casanova, David N. Cooper, Peter D. Stenson, Alper Yavuz, Hakan Bulus, Murat Gunel, Jeffrey M. Friedman, Tayfun Ozcelik
Summary: The study on the genetic structure of Turkey reveals a closer genetic relationship of the Turkish population to Europeans. A Turkish Variome has been established as a valuable resource for identifying disease genes in Turkey and for facilitating genome-wide association studies.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2021)
Article
Microbiology
Bin Fang, Juan Lai, Yongfeng Liu, Tian-tian Yu, Xiao Yu, Xiang Li, Lijun Dong, Xin Zhang, Wei Yang, Qin Yan, Lei Sun, Lin-lin Liu
Summary: This study characterized the genomic epidemiology of human adenoviruses (HAdVs) in Hubei, China using metagenomic next-generation sequencing (mNGS). The most common genotypes were HAdV-B3 and HAdV-C2, and three recombinant strains were identified. This study is important for understanding the genomic variation and recombination of HAdVs, and highlights the need for epidemiological surveillance in China.
FRONTIERS IN MICROBIOLOGY
(2023)
Article
Microbiology
Malyaj R. Prajapati, Aakansha Manav, Pankhuri Singhal, Venkidusamy K. Sidharthan, Ujjwal Sirohi, Mukesh Kumar, Mahesh Kumar Bharti, Jitender Singh, Pankaj Kumar, Ravindra Kumar, Satya Prakash, Virendra Kumar Baranwal
Summary: This study reports the coding-complete genomic RNA of tuberose mild mosaic virus (TuMMV) and tuberose mild mottle virus (TuMMoV) and confirms their presence using RT-PCR assays. These viruses are widely distributed in tuberose growing countries with low biological incidence. Further studies are needed to understand the potential threat of these viruses to tuberose production.
Article
Plant Sciences
Yuqing He, Xueying Zhang, Linying Li, Zongtao Sun, Junmin Li, Xiaoya Chen, Gaojie Hong
Summary: Phosphate is the plant-accessible form of phosphorus, and its deficiency limits plant growth. Studies show that phosphate deficiency can lead to over-accumulation of anthocyanins in plants, and SPX4 plays a role in transmitting the phosphate starvation signal to anthocyanin biosynthesis pathways.
Editorial Material
Plant Sciences
Z. Y. Wei, C. Jiang, C. Y. Mao, H. H. Zhang, R. P. Miao, J. P. Chen, Z. T. Sun
Article
Immunology
Yu-Juan He, Gang Lu, Yu-Hua Qi, Yan Zhang, Xiao-Di Zhang, Hai-Jian Huang, Ji-Chong Zhuo, Zong-Tao Sun, Fei Yan, Jian-Ping Chen, Chuan-Xi Zhang, Jun-Min Li
Summary: The Toll pathway in insect vectors is activated by plant virus infection, leading to upregulation of key genes and increased mortality in infected insects. The activation of Toll pathway is initiated by the direct interaction between Toll receptor and a protein encoded by the plant virus, indicating that it is an important defense mechanism against plant virus infection in insect vectors.
FRONTIERS IN IMMUNOLOGY
(2021)
Correction
Plant Sciences
Xiaoya Chen, Yuqing He, Gaojie Hong, Junmin Li, Linying Li, Zongtao Sun, Xueying Zhang
Article
Biotechnology & Applied Microbiology
Hehong Zhang, Changhai Chen, Lulu Li, Xiaoxiang Tan, Zhongyan Wei, Yanjun Li, Junmin Li, Fei Yan, Jianping Chen, Zongtao Sun
Summary: Our study found that the rice LRR receptor-like protein OsRLP1 plays an important role in resistance against RBSDV infection by positively regulating MAPKs and PTI-related gene expression. Additionally, OsRLP1 interacts with a receptor-like kinase OsSOBIR1 to regulate PTI response and rice antiviral defense.
PLANT BIOTECHNOLOGY JOURNAL
(2021)
Article
Biology
Hai-Jian Huang, Xiao-Tian Yan, Zhong-Yan Wei, Yi-Zhe Wang, Jian-Ping Chen, Jun-Min Li, Zong-Tao Sun, Chuan-Xi Zhang
Summary: The bean bug, Riptortus pedestris, is a notorious pest of soybean crops in Asia, secreting a mixture of salivary proteins that induce cell death and plant defense responses. A total of 136 salivary proteins were identified in this study using transcriptomic and proteomic approaches, shedding light on the molecular mechanisms underlying plant-insect interactions. This research provides valuable insights for future studies on bug salivary effectors and pest management.
Article
Virology
Qiannan Liu, Tingyun Yan, Xiaoxiang Tan, Zhongyan Wei, Yanjun Li, Zongtao Sun, Hehong Zhang, Jianping Chen
Summary: In this study, 20 genes of the OTU family in the rice genome were identified and analyzed. The results showed that rice OTU genes exhibited specific expression patterns in response to plant hormone treatments and virus infection, indicating their involvement in hormone signaling pathways and responses to virus infection.
Article
Microbiology
Xiaoxiang Tan, Hehong Zhang, Zihang Yang, Zhongyan Wei, Yanjun Li, Jianping Chen, Zongtao Sun
Summary: NF-YA transcription factors, specifically OsNF-YA genes, were found to have negative roles in plant antiviral defense by repressing JA signaling pathways. This study showed that overexpression of OsNF-YAs enhanced susceptibility to virus infection, while RNAi mutants of OsNF-YAs were more resistant. The authors also discovered that OsNF-YAs physically interact with JA signaling transcription factors, interfering with JA signaling and inhibiting the activation activity of OsMYC2/3. These findings provide new insights into the association between NF-YA genes and the JA pathway in plant antiviral defense.
Article
Virology
Runpu Miao, Zhuangxin Ye, Stuart MacFarlane, Yanjun Li, Qianzhuo Mao, Yanzhen Tian, Zhiping Deng, Zongtao Sun, Jian Yang, Junmin Li, Fei Yan, Jianping Chen, Chulang Yu
Summary: This study indicates that the P3N-PIPO protein of WYMV plays an important role in disease symptom formation, and it interacts with the receptor-like kinase NbRLK6 in N. benthamiana.
Article
Virology
Chunyun Guo, Zhuangxin Ye, Biao Hu, Shiqi Shan, Jianping Chen, Zongtao Sun, Junmin Li, Zhongyan Wei
Summary: This study collected Riptortus pedestris from six soybean-producing regions in China and used metatranscriptomic approach to analyze their virome. Seven new insect RNA viruses were identified, three of which had complete genome sequences. These newly identified viruses belonged to the family Rhabdoviridae and provided viral information for the development of potential soybean insect-specific biocontrol agents.
Article
Plant Sciences
Shiqi Shan, Yue Huang, Chunyun Guo, Biao Hu, Hehong Zhang, Yanjun Li, Jianping Chen, Zhongyan Wei, Zongtao Sun
Summary: The bean bug (Riptortus pedestris) is a significant soybean pest causing staygreen syndrome and yield loss. In this study, a salivary secretory protein, Rp614, was found to induce cell death in a nonhost plant, Nicotiana benthamiana. NbSGT1 and NbNDR1 were identified as important factors in Rp614-induced cell death. Tissue specificity analysis showed that Rp614 is mainly present in salivary glands and highly induced during pest feeding. Silencing Rp614 significantly attenuated staygreen syndrome caused by R. pedestris, highlighting its essential role as a potential RNA interference target for pest control.
MOLECULAR PLANT PATHOLOGY
(2023)
Article
Virology
Fengmin Wang, Weiqi Song, Chaorui Huang, Zhongyan Wei, Yanjun Li, Jianping Chen, Hehong Zhang, Zongtao Sun
Summary: Plants utilize receptor-like proteins and receptor-like kinases to identify and defend against invading pathogens. However, the role of receptor-like proteins in plant antiviral defense, specifically in rice-virus interactions, remains limited. This study identified a receptor-like gene, OsBAP1, which showed an increased expression upon infection with southern rice black-streaked dwarf virus (SRBSDV). Knockout mutant analysis demonstrated that OsBAP1 negatively regulates rice resistance to SRBSDV infection. Transcriptome analysis revealed that defense-related genes were significantly enriched in OsBAP1 mutant plants, further supporting its role in plant immunity pathways.
Editorial Material
Biochemistry & Molecular Biology
Yuwen Cao, Aziz Ul Ikram, Jianping Chen, Zongtao Sun, Jian Chen
JOURNAL OF INTEGRATIVE PLANT BIOLOGY
(2023)
Editorial Material
Parasitology
Rouhallah Shari, Jianping Chen, Zongtao Sun, Jian Chen
Summary: Strigolactones from maize root exudates promote the germination of parasitic witchweed Striga. Li et al. recently identified the biosynthesis pathway of two less effective strigolactones, zealactol and zealactonoic acid, compared to the major maize strigolactone, zealactone. This study offers a promising approach for plant protection against parasitic witchweed.
TRENDS IN PARASITOLOGY
(2023)
Article
Biochemistry & Molecular Biology
Shanshan Qiu, Anfei Fang, Xinhang Zheng, Shanzhi Wang, Jiyang Wang, Jing Fan, Zongtao Sun, Han Gao, Jiyun Yang, Qingtao Zeng, Fuhao Cui, Wen-Ming Wang, Jianping Chen, Wenxian Sun
Summary: In this study, a crucial virulence effector, SCRE4, was identified and characterized in U. virens. SCRE4 suppressed the expression of the immune positive modulator OsARF17, contributing to the infection process.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)