Article
Plant Sciences
Janina K. von Dahlen, Kerstin Schulz, Jessica Nicolai, Laura E. Rose
Summary: This study analyzed the expression of R-genes in tomato and potato to investigate how interactions with microbes influence R-gene expression. The results suggest that most R-genes are constitutively expressed, while only a small subset show differential expression during infection. Tissue-specific transcriptional regulation plays a significant role in determining R-gene expression levels.
FRONTIERS IN PLANT SCIENCE
(2023)
Article
Biochemistry & Molecular Biology
Javier Ib, Lalla Hasna Zinelabidine, Rafael Torres-Perez, Jerome Grimplet, Elisa Baroja, Sergio Ibanez, Pablo Carbonell-Bejerano, Jose Miguel Martinez-Zapater, Javier Ibanez, Javier Tello
Summary: The study revealed that grape yield components are determined by complex polygenic factors, with certain SNPs showing additive effects on the phenotype. This suggests that superior grape cultivars with optimized fruit production can potentially be generated by pyramiding advantageous alleles from different genetic loci.
Article
Endocrinology & Metabolism
Wei Bai, Qi Zhang, Zhi Lin, Jin Ye, Xiaoqi Shen, Linshuang Zhou, Wenpin Cai
Summary: This study used CNV-seq technology to analyze copy number variations in 395 aborted fetal specimens from spontaneous abortion patients, and collected correlated data, including maternal age, gestational week, and BMI. The study found a potential correlation between chromosomal abnormalities and spontaneous abortion, and identified potential miscarriage candidate genes and functions.
FRONTIERS IN ENDOCRINOLOGY
(2023)
Article
Biotechnology & Applied Microbiology
Padma Nimmakayala, Carlos Lopez-Ortiz, Bhagarathi Shahi, Venkata L. Abburi, Purushothaman Natarajan, Arjun Ojha Kshetry, Suhas Shinde, Brittany Davenport, John Stommel, Umesh K. Reddy
Summary: Research on cultivated Capsicum chinense revealed genetic mechanisms underlying fruit shape variation in pepper, identifying candidate genes and SNPs associated with fruit shape through genotyping by sequencing and Genome-wide association study (GWAS).
Article
Agriculture, Multidisciplinary
Zirwah Rizwan, Nosheen Aslam, Farheen Zafar, Rashida Humma, Amer Jamil
Summary: Novel cyclotide precursor genes have been discovered in Solanaceae plant species, which possess unique structural sequences, a range of antimicrobial activities, and evolutionary connections to demonstrate their diversity from other plant families.
PAKISTAN JOURNAL OF AGRICULTURAL SCIENCES
(2021)
Article
Multidisciplinary Sciences
Nishanth Ulhas Nair, Kuoyuan Chen, Lamis Naddaf, Elad Sharon, Lipika R. Pal, Padma S. Rajagopal, Irene Unterman, Kenneth Aldape, Sridhar Hannenhalli, Chi-Ping Day, Yuval Tabach, Eytan Ruppin
Summary: The study found that genes related to cancer resistance are enriched in metabolic functions for negatively correlated genes, and in cell cycle regulation, DNA repair, and immune response for positively correlated genes. Positively correlated genes are less tolerant to loss-of-function mutations, enriched in cancer driver genes, and associated with germline mutations that increase human cancer risk. This cross-species genomic analysis points to candidate genes that may mediate human cancer risk.
Review
Biochemistry & Molecular Biology
Pilar Cacheiro, Damian Smedley
Summary: Protein coding genes exhibit different degrees of intolerance to loss-of-function variation. The most intolerant genes, which are essential for cell or/and organism survival, provide insights into fundamental biological processes and human disease mechanisms. This brief overview emphasizes the importance of gene essentiality information in disease gene discovery and therapeutic target identification, using various sources and definitions.
Article
Oncology
Ming Liang Oon, Jing Quan Lim, Bernett Lee, Sai Mun Leong, Gwyneth Shook-Ting Soon, Zi Wei Wong, Evelyn Huizi Lim, Zhenhua Li, Allen Eng Juh Yeoh, Shangying Chen, Kenneth Hon Kim Ban, Tae-Hoon Chung, Soo-Yong Tan, Shih-Sung Chuang, Seiichi Kato, Shigeo Nakamura, Emiko Takahashi, Yong-Howe Ho, Joseph D. Khoury, Rex K. H. Au-Yeung, Chee-Leong Cheng, Soon-Thye Lim, Wee-Joo Chng, Claudio Tripodo, Olaf Rotzschke, Choon Kiat Ong, Siok-Bian Ng
Summary: T-cells play a critical role in defending the human body against pathogens, with T-cell lymphomas characterized by malignant T-cells proliferating and forming genetically identical populations with the same TCR rearrangement pattern. A novel segmentation and copy number computation algorithm has been developed to accurately identify different TCR rearrangement patterns using whole genome sequencing data, potentially improving diagnostic accuracy for TCLs and having broader applications in hematology.
Article
Infectious Diseases
Laura Binkley, Jeanette O'Quin, Balbine Jourdan, Getnet Yimer, Asefa Deressa, Laura W. Pomeroy
Summary: In this study, the interactions among wildlife species in Ethiopia with the greatest potential for contributing to rabies maintenance were quantified. The results identified urban carnivores, particularly hyenas and cats, as the highest risk species for rabies transmission. The study also found that urban and peri-urban sites posed the greatest risk for rabies transmission, with the night-time hours presenting the greatest risk for contact events. Overall, both intra- and inter-species contacts posed risk for rabies maintenance.
TRANSBOUNDARY AND EMERGING DISEASES
(2022)
Article
Medicine, General & Internal
Guoming Chu, Pingping Li, Juan Wen, Gaoyan Zheng, Yanyan Zhao, Rong He
Summary: This study aimed to investigate the genotype-phenotype correlation of 5p deletion syndrome and redefine the relevant regions. Through studying three families and two children, different sizes of 5p deletions were detected and their pathogenicity was determined. Additionally, the potential of whole genome sequencing in identifying chromosomal breakpoints in prenatal diagnosis was demonstrated.
FRONTIERS IN MEDICINE
(2022)
Article
Genetics & Heredity
Zhipeng Wang, Yuanyuan Guo, Shengwei Liu, Qingli Meng
Summary: Copy number variations (CNVs) are important structural variations that can cause significant phenotypic diversity. Identification of CNVs from different genetic backgrounds can achieve reliable CNVs mapping. Investigations on the characteristics of overlapping between CNV regions (CNVRs) and protein-coding genes (CNV genes) or miRNAs (CNV-miRNAs) can reveal the potential mechanisms of their regulation.
FRONTIERS IN GENETICS
(2021)
Article
Immunology
Ria Lassauniere, Caroline T. Tiemessen
Summary: Research on the Fc receptors for Immunoglobulin G suggests their crucial role in the immune response, particularly in HIV-1 vaccine efficacy trials. Host genetic correlates within the low affinity Fc gamma-receptor locus have been identified in HIV-1 efficacy trials, shedding light on the potential contribution of Fc gamma R variability in modulating different HIV-1 vaccine efficacy outcomes.
FRONTIERS IN IMMUNOLOGY
(2021)
Article
Genetics & Heredity
Anna Samelak-Czajka, Pawel Wojciechowski, Malgorzata Marszalek-Zenczak, Marek Figlerowicz, Agnieszka Zmienko
Summary: MicroRNAs (miRNAs) regulate gene expression through the RNA interference mechanism. Conserved MIRs are involved in developmental and physiological processes, while nonconserved MIRs participate in stress responses. Copy number variations of Arabidopsis MIRs are related to their age, function, and genomic localization.
FUNCTIONAL & INTEGRATIVE GENOMICS
(2023)
Article
Biotechnology & Applied Microbiology
Abbas Saidi, Zohreh Hajibarat, Zahra Hajibarat
Summary: The study analyzed 20 potato and 22 tomato GATA genes to investigate their functions in evolution and expression, revealing evolutionary characteristics of potato and tomato genomes.
BIOCATALYSIS AND AGRICULTURAL BIOTECHNOLOGY
(2021)
Article
Agronomy
Quaid Hussain, Jiepeng Zhan, Huabing Liang, Xinfa Wang, Guihua Liu, Jiaqin Shi, Hanzhong Wang
Summary: Silique length has an impact on seed yield in oilseed rape. Through genome-wide association study (GWAS) and transcriptomic analysis, genes and regulatory mechanisms related to silique length have been identified. These findings provide valuable information for improving silique length in oilseed rape.