Ontology highlight
ABSTRACT:
PROVIDER: PRJNA1037345 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:Eucalyptus urophylla is a commercially important wood crop plantation species due to its rapid growth, biomass yield, and use as bioenergy feedstock. We characterized the genetic diversity and population structure of 332 E. urophylla individuals from 19 geographically defined E. urophylla populations with a reliability of 14,468 single nucleotide polymorphisms (SNPs). We compared the patterns of genetic variation among these 19 populations. High levels of genetic diversity were observed throughout the 19 E. urophylla populations based on genome-wide SNP data (HE=0.2677 to 0.3487). Analysis with STRUCTURE software, Principal component analysis (PCA) and a neighbor-joining (NJ) tree indicated that E. urophylla populations could be divided into three groups, and moderate and weak population structure was observed with pairwise genetic differentiation (FST) values ranging from −0.09 to 0.074. The low genetic diversity and shallow genetic differentiation found within the 19 populations may be a consequence of their pollination system and seed dispersal mechanism. In addition, 55 core germplasms of E. urophylla were constructed according to the genetic marker data. The genome-wide SNPs we identified will provide a valuable resource for further genetic improvement and effective use of the germplasm resources.
2023-01-31 | GSE145072 | GEO
Project description:We selected wild A. venetum of four distributed regions (jinta county, minqin county, hangjinqi and baicheng) as the test materials in the study. Based on the study of community composition, population genetic diversity and soil environmental properties of wild A. venetum, physiological characteristics, transcriptomics and proteomics analysis of A. venetum under salt stress, and key regulatory proteins and genes of A. venetum salt tolerance were measured and identified to reveal the ecological adaptability of wild A. venetum and underlying mechanisms in response to salt stress. The study is beneficial to promote the protection and rational development and utilization of germplasm resources of wild A. venetum, and is of great significance to the development of national pharmacology and the construction of ecological civilization in China.
2024-04-09 | GSE229255 | GEO
Project description:Mango bacterial leaf spot, which is caused by Xanthomonas critis pv. mangiferaeindicae (Xcm), poses a great threat to the development of mango planting industry.This work is the first to study the changes in gene and protein expressions in mango during Xcm infection. Our findings will provide new ideas for MBLS resistance and valuable genetic resources for the breeding of MBLS-resistant mango.
2023-06-27 | PXD043358 |
Project description:Low temperature is one of the major factors affecting rice germination, and low tempera-ture germination (LTG) is an important agronomic trait. Although genetic variation is abundant in rice germplasm resources, the molecular mechanism of LTG remains poorly understood. In this study, we first proved that weedy rice WR04-6 had significantly better low-temperature germination (LTG) ability at 10°C than the cultivated rice Qishanzhan (QSZ). RNA-seq was used to investigate the gene expression of WR04-6 and QSZ at 10, 12 and 14 days of seed germination at 10°C. The results of GO enrichment and KEGG en-richment revealed that the differentially expressed genes between WR04-6 and QSZ were mainly concentrated on the response to starch catabolic processes and the response to ab-scisic acid. This is consistent with the results of α-amylase activity, ABA and GA treat-ment. A recombinant inbred line (RIL) population derived from a cross between WR04-6 and QSZ and its high density SNP genetic map were used to detect quantitative trait loci (QTL) for low temperature germination rates at 10°C for 14 days. The results showed that two new QTLs were located on chromosome 3 and chromosome 12. Combined with the mapped QTLs and RNA-seq differential genes (DEGs), sixteen candidate genes potentially associated with LTG were identified. Validation of expression of the candidates by qRT-PCR were consistent with the RNA-seq data. These results will enable us to under-stand the genetic basis of LTG in weedy rice and provide new genetic resources for gener-ation of rice germplasm with LTG.
2023-03-01 | GSE222929 | GEO