scholarly journals Signatures of natural selection in abiotic stress-responsive genes of Solanum chilense

2018 ◽  
Vol 5 (1) ◽  
pp. 171198 ◽  
Author(s):  
Katharina B. Böndel ◽  
Tetyana Nosenko ◽  
Wolfgang Stephan
Keyword(s):  
Abiotic Stress ◽  
Natural Selection ◽  
Local Adaptation ◽  
Stress Factors ◽  
Abiotic Stress Response ◽  
Wild Tomato Species ◽  
Tomato Species ◽  
Abiotic Stress Factors ◽  
Solanum Chilense ◽  
Stress Responsive Genes

Environmental conditions are strong selective forces, which may influence adaptation and speciation. The wild tomato species Solanum chilense , native to South America, is exposed to a range of abiotic stress factors. To identify signatures of natural selection and local adaptation, we analysed 16 genes involved in the abiotic stress response and compared the results to a set of reference genes in 23 populations across the entire species range. The abiotic stress-responsive genes are characterized by elevated nonsynonymous nucleotide diversity and divergence. We detected signatures of positive selection in several abiotic stress-responsive genes on both the population and species levels. Local adaptation to abiotic stresses is particularly apparent at the boundary of the species distribution in populations from coastal low-altitude and mountainous high-altitude regions.

scholarly journals The de novo reference genome and transcriptome assemblies of the wild tomato species Solanum chilense

2019 ◽  
Author(s):  
Remco Stam ◽  
Tetyana Nosenko ◽  
Anja C. Hörger ◽  
Wolfgang Stephan ◽  
Michael Seidel ◽  
...  
Keyword(s):  
Abiotic Stress ◽  
Comparative Genomics ◽  
Reference Genome ◽  
Biotic And Abiotic Stress ◽  
Wild Tomato ◽  
Wild Tomato Species ◽  
Tomato Species ◽  
Solanum Chilense ◽  
Tomato Breeding ◽  
Gene Models

ABSTRACTBackgroundWild tomato species, like Solanum chilense, are important germplasm resources for enhanced biotic and abiotic stress resistance in tomato breeding. In addition, S. chilense serves as a model system to study adaptation of plants to drought and to investigate the evolution of seed banks. However to date, the absence of a well annotated reference genome in this compulsory outcrossing, very diverse species limits in-depth studies on the genes involved.FindingsWe generated ∼134 Gb of DNA and 157 Gb of RNA sequence data of S chilense, which yielded a draft genome with an estimated length of 914 Mb in total encoding 25,885 high-confidence (hc) predicted gene models, which show homology to known protein-coding genes of other tomato species. Approximately 71% (18,290) of the hc gene models are additionally supported by RNA-seq data derived from leaf tissue samples. A benchmarking with Universal Single-Copy Orthologs (BUSCO) analysis of predicted gene models retrieved 93.3% BUSCO genes, which is in the current range of high-quality genomes for non-inbred plants. To further verify the genome annotation completeness and accuracy, we manually inspected the NLR resistance gene family and assessed its assembly quality. We revealed the existence of unique gene families of NLRs to S. chilense. Comparative genomics analyses of S. chilense, cultivated tomato S. lycopersicum and its wild relative S. pennellii revealed similar levels of highly syntenic gene clusters between the three species.ConclusionsWe generated the first genome and transcriptome sequence assembly for the wild tomato species Solanum chilense and demonstrated its value in comparative genomics analyses. We make these genomes available for the scientific community as an important resource for studies on adaptation to biotic and abiotic stress in Solanaceae, on evolution of self-incompatibility, and for tomato breeding.

scholarly journals Jute Responses and Tolerance to Abiotic Stress: Mechanisms and Approaches

Plants ◽  
2021 ◽  
Vol 10 (8) ◽  
pp. 1595
Author(s):  
Khussboo Rahman ◽  
Naznin Ahmed ◽  
Md. Rakib Hossain Raihan ◽  
Farzana Nowroz ◽  
Faria Jannat ◽  
...  
Keyword(s):  
Abiotic Stress ◽  
Stress Responses ◽  
Growth Yield ◽  
Climatic Conditions ◽  
Stress Factors ◽  
Growth Physiology ◽  
Abiotic Stress Factors ◽  
Hot And Humid Climates ◽  
Adverse Environmental Conditions ◽  
Cold Metal

Jute (Corchorus spp.) belongs to the Malvaceae family, and there are two species of jute, C. capsularis and C. olitorious. It is the second-largest natural bast fiber in the world according to production, which has diverse uses not only as a fiber but also as multiple industrial materials. Because of climate change, plants experience various stressors such as salt, drought, heat, cold, metal/metalloid toxicity, and flooding. Although jute is particularly adapted to grow in hot and humid climates, it is grown under a wide variety of climatic conditions and is relatively tolerant to some environmental adversities. However, abiotic stress often restricts its growth, yield, and quality significantly. Abiotic stress negatively affects the metabolic activities, growth, physiology, and fiber yield of jute. One of the major consequences of abiotic stress on the jute plant is the generation of reactive oxygen species, which lead to oxidative stress that damages its cellular organelles and biomolecules. However, jute’s responses to abiotic stress mainly depend on the plant’s age and type and duration of stress. Therefore, understanding the abiotic stress responses and the tolerance mechanism would help plant biologists and agronomists in developing climate-smart jute varieties and suitable cultivation packages for adverse environmental conditions. In this review, we summarized the best possible recent literature on the plant abiotic stress factors and their influence on jute plants. We described the possible approaches for stress tolerance mechanisms based on the available literature.

Performance of plant growth-promoting bacterium of duckweed under different kinds of abiotic stress factors

2019 ◽  
Vol 19 ◽  
pp. 101146 ◽  
Author(s):  
Hidehiro Ishizawa ◽  
Minami Tada ◽  
Masashi Kuroda ◽  
Daisuke Inoue ◽  
Michihiko Ike
Keyword(s):  
Abiotic Stress ◽  
Plant Growth ◽  
Stress Factors ◽  
Abiotic Stress Factors ◽  
Plant Growth Promoting ◽  
Growth Promoting

Variability in Breeding Pool of Sugarcane (Saccharum spp.) for Yield, Quality and Resistance to Different Biotic and Abiotic Stress Factors

Sugar Tech ◽  
2014 ◽  
Vol 17 (2) ◽  
pp. 107-115
Author(s):  
A. Anna Durai ◽  
M. N. Premachandran ◽  
P. Govindaraj ◽  
P. Malathi ◽  
R. Viswanathan
Keyword(s):  
Abiotic Stress ◽  
Stress Factors ◽  
Biotic And Abiotic Stress ◽  
Saccharum Spp ◽  
Abiotic Stress Factors ◽  
Yield Quality ◽  
Breeding Pool
Sign in / Sign up

Export Citation Format

Share Document