Whole-genome comparison between reference sequences and oyster Vibrio vulnificus C-genotype strains

CARLOS ABRAHAM GUERRERO RUIZ (2019, [Artículo])

Whole-genome sequences of Vibrio vulnificus clinical genotype (C-genotype) from the CICESE Culture Collection, isolated from oysters, were compared with reference sequences of CMCP6 and YJ016 V. vulnificus C-genotype strains of clinical origin. The RAST web server estimated the whole genome to be ~4.8 Mb in CICESE strain 316 and ~4.7 Mb in CICESE strain 325. No plasmids were detected in the CICESE strains. Based on a phylogenetic tree that was constructed with the whole-genome results, we observed high similarity between the reference sequences and oyster C-genotype isolates and a sharp contrast with environmental genotype (E-genotype) reference sequences, indicating that the differences between the C- and E-genotypes do not necessarily correspond to their isolation origin. The CICESE strains share 3488 genes (63.2%) with the YJ016 strain and 3500 genes (63.9%) with the CMCP6 strain. A total of 237 pathogenicity associated genes were selected from reference clinical strains, where—92 genes were from CMCP6, 126 genes from YJ016, and 19 from MO6-24/ O; the presence or absence of these genes was recorded for the CICESE strains. Of the 92 genes that were selected for CMCP6, 67 were present in both CICESE strains, as were as 86 of the 126 YJ016 genes and 13 of the 19 MO6-24/O genes. The detection of elements that are related to virulence in CICESE strains—such as the RTX gene cluster, vvhA and vvpE, the type IV pili cluster, the XII genomic island, and the viuB genes, suggests that environmental isolates with the C-genotype, have significant potential for infection. © 2019 Guerrero et al. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.

Article, bacterial gene, bacterial strain, bacterial virulence, comparative study, controlled study, gene cluster, gene identification, genomic island, genotype, nonhuman, phylogenetic tree, sequence analysis, strain identification, Vibrio vulnificus BIOLOGÍA Y QUÍMICA CIENCIAS DE LA VIDA GENÉTICA GENÉTICA

Genetic analysis of Vibrio parahaemolyticus O3:K6 strains that have been isolated in Mexico since 1998

CARLOS ABRAHAM GUERRERO RUIZ (2017, [Artículo])

Vibrio parahaemolyticus is an important human pathogen that has been isolated worldwide from clinical cases, most of which have been associated with seafood consumption. Environmental and clinical toxigenic strains of V. parahaemolyticus that were isolated in Mexico from 1998 to 2012, including those from the only outbreak that has been reported in this country, were characterized genetically to assess the presence of the O3:K6 pandemic clone, and their genetic relationship to strains that are related to the pandemic clonal complex (CC3). Pathogenic tdh+ and tdh+/trh+ strains were analyzed by pulsed-field gel electrophoresis (PFGE) and multilocus sequence typing (MLST). Also, the entire genome of a Mexican O3:K6 strain was sequenced. Most of the strains were tdh/ORF8-positive and corresponded to the O3:K6 serotype. By PFGE and MLST, there was very close genetic relationship between ORF8/O3:K6 strains, and very high genetic diversities from non-pandemic strains. The genetic relationship is very close among O3:K6 strains that were isolated in Mexico and sequences that were available for strains in the CC3, based on the PubMLST database. The whole-genome sequence of CICESE-170 strain had high similarity with that of the reference RIMD 2210633 strain, and harbored 7 pathogenicity islands, including the 4 that denote O3:K6 pandemic strains. These results indicate that pandemic strains that have been isolated in Mexico show very close genetic relationship among them and with those isolated worldwide. © 2017 Guerrero et al. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.

Article, bacterial strain, biofouling, controlled study, Crassostrea, food intake, gene sequence, genetic analysis, genetic variability, Japan, Mexican, Mexico, molecular phylogeny, nonhuman, pandemic, pathogenicity island, sea food, serotyping, toxi BIOLOGÍA Y QUÍMICA CIENCIAS DE LA VIDA GENÉTICA GENÉTICA

Multiplexed host-induced gene silencing of Aspergillus flavus genes confers aflatoxin resistance in groundnut

Kiran Sharma Pooja Bhatnagar-Mathur (2023, [Artículo])

Host-Induced Gene Silencing CIENCIAS AGROPECUARIAS Y BIOTECNOLOGÍA AFLATOXINS ARACHIS HYPOGAEA ASPERGILLUS FLAVUS FATTY ACIDS GROUNDNUTS PROTEOMICS

Relación de adenovirus 36 con la obesidad, expresión de genes (c/ebpB y hif-1A) y la morfologia del tejido adiposo.

JORGE BARRERA ALCOCER (2021, [Tesis de doctorado])

Introducción: Al origen infeccioso de la obesidad se le conoce como ¿infectobesidad¿. Los primeros estudios realizados en modelos animales, como pollos, ratones y primates no humanos, asociaron la presencia de anticuerpos contra HAd36 con el desarrollo de la obesidad y la ganancia de peso, de igual manera los ensayos realizados en preadipocitos (3T3-L1) y células madre adiposas humanas (hASCc) han demostrado que HAd36 se asocia con la expresión de genes implicados en la diferenciación celular y el metabolismo de lípidos. Los estudios realizados para identificar el DNA viral en tejido adiposo son pocos y los resultados inconsistentes. Objetivo: Analizar la presencia del DNA de HAd36 en biopsias de tejido adiposo subcutáneo y su relación con la obesidad, cambios morfológicos de los adipocitos y la expresión de genes adipogénicos y de metabolismo celular. Materiales y Métodos: Se recolectaron un total de 52 biopsias de tejido adiposo subcutáneo de mujeres sometidas a liposucción y/o lipectomia. Se realizó una evaluación antropométrica y clínico-bioquímica. La identificación del DNA de HAd36 se realizó por PCR convencional, la expresión de los genes C/EBPB, HIF-1A y ¿-actina se determinó utilizando sondas TaqMan. La morfología celular se analizó en secciones de tejido adiposo teñidas con H&E, la estimación del número y tamaño de las células se realizó con el software Image J Fiji. Resultados: Se identificó el DNA de HAd36 en 16 muestras de tejido adiposo subcutáneo (31%). La presencia del DNA viral no se asoció con los parámetros antropométricos o metabólicos, tampoco con cambios en la morfología del tejido adiposo. Los niveles de expresión de mRNA para C/EBPB y HIF-1A no mostraron diferencias significativas entre las muestras positivas y negativas al DNA viral (p>0.05). Conclusión: El DNA de HAd36 puede estar presente en el tejido adiposo subcutáneo, pero la presencia del DNA viral no se encontró relacionado con los cambios morfológicos en este tejido, ni con la expresión de genes como C/EBPB y HIF-1A.

BIOLOGÍA Y QUÍMICA CIENCIAS DE LA VIDA GENÉTICA GENÉTICA CLÍNICA

Epistasis activation contributes substantially to heterosis in temperate by tropical maize hybrids

Liu Xiaogang Yunbi Xu (2022, [Artículo])

Genome-Wide Association Study Epistatic Effects Protein Interaction Multiple-Hybrid Population CIENCIAS AGROPECUARIAS Y BIOTECNOLOGÍA HETEROSIS MAIZE PROTEINS HYBRIDS

Genome-wide association study of common resistance to rust species in tetraploid wheat

Daniela Marone Anna Maria Mastrangelo Karim Ammar Filippo Maria Bassi Meinan Wang Xianming Chen Diego Rubiales Oadi Matny Brian Steffenson (2024, [Artículo])

Wheat Rusts Tetraploid Wheat Multi-Location Trials CIENCIAS AGROPECUARIAS Y BIOTECNOLOGÍA QUANTITATIVE TRAIT LOCI TETRAPLOIDY WHEAT RUSTS GENOME-WIDE ASSOCIATION STUDIES

Gender dynamics of weed management under conservation agriculture: Insights from the Eastern Indo-Gangetic Plains of South Asia

Hom Nath Gartaula (2021, [Objeto de congreso])

CIENCIAS AGROPECUARIAS Y BIOTECNOLOGÍA GENDER WEED CONTROL CONSERVATION AGRICULTURE ZERO TILLAGE

Erratum: Author Correction: Genetic structure analysis and identifying key founder inbred lines in diverse elite sub-tropical maize inbred lines (Scientific reports (2023) 13 1 (11695))

Melaku Gedil Ana Luisa Garcia-Oliveira Nnanna Unachukwu Cesar Petroli Sarah Hearne Abebe Menkir (2023, [Artículo])

Genetic Relationships Desirable Traits CIENCIAS AGROPECUARIAS Y BIOTECNOLOGÍA GENETIC STRUCTURES INBRED LINES MAIZE BREEDING PROGRAMMES

Celebrating Professor Rajeev K. Varshney's transformative research odyssey from genomics to the field on his induction as Fellow of the Royal Society

Vanika Garg Rutwik Barmukh Manish Roorkiwal Chris Ojiewo Abhishek Bohra MAHENDAR THUDI Vikas Kumar Singh Himabindu Kudapa Reyaz Mir Chellapilla Bharadwaj Xin Liu Manish Pandey (2024, [Artículo])

Agricultural Biotechnology Crop Genomics Genome Sequencing CIENCIAS AGROPECUARIAS Y BIOTECNOLOGÍA BIOTECHNOLOGY CROPS GENOMICS PLANT BREEDING AGRICULTURE GENETIC IMPROVEMENT

Gender, rainfall endowment, and farmers’ heterogeneity in wheat trait preferences in Ethiopia

Hom Nath Gartaula Moti Jaleta (2024, [Artículo])

Wheat is a vital cereal crop for smallholders in Ethiopia. Despite over fifty years of research on wheat varietal development, consideration of gendered trait preferences in developing target product profiles for wheat breeding is limited. To address this gap, our study used sex-disaggregated survey data and historical rainfall trends from the major wheat-growing regions in Ethiopia. The findings indicated heterogeneity in trait preferences based on gender and rainfall endowment. Men respondents tended to prefer wheat traits with high straw yield and disease-resistance potential, while women showed a greater appreciation for wheat traits related to good taste and cooking quality. Farmers in high rainfall areas seemed to prioritize high straw yield and disease resistance traits, while those in low rainfall areas valued good adaptation traits more highly. Most of the correlation coefficients among the preferred traits were positive, indicating that farmers seek wheat varieties with traits that serve multiple purposes. Understanding men's and women's preferences and incorporating them in breeding and seed systems could contribute to the development of more targeted and effective wheat varieties that meet the diverse needs of men and women farmers in Ethiopia.

Trait Preferences Multivariate Probit Model CIENCIAS AGROPECUARIAS Y BIOTECNOLOGÍA WHEAT AGRONOMIC CHARACTERS GENDER RAINFALL PROBIT ANALYSIS