Wild rice (<i>Oryza</i> spp.) germplasm collections from gangetic plains and eastern region of India: Diversity mapping and habitat prediction using ecocrop model

Semwal, DP; Pradheep, K; Sp, Ahlawat

doi:10.5958/2229-4473.2016.00106.3

Cited by 6 publications

(3 citation statements)

References 12 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Although both analyses place the ancestral gene pools in identical geographic regions, it should be noted that the analyses may suffer from insufficient sampling. For example, a great diversity of natural wild rice populations was reported from the Gangetic plains (Uttar Pradesh and Bihar states) [ 37 ]. Unfortunately, these wild populations are under-represented in the SNP dataset [ 3 ], despite the fact that the earliest archaeological evidence of Neolithic rice exploitation on the Indian subcontinent comes from the Gangetic plains [ 38 , 39 ].…”

Section: Resultsmentioning

confidence: 99%

Role of genetic introgression during the evolution of cultivated rice (Oryza sativa L.)

Civáň

Brown

2018

BMC Evol Biol

View full text Add to dashboard Cite

BackgroundModels for the origins of cultivated rice currently fall into two groups: ones that identify independent domestications of the indica, japonica and possibly also the aus types, and others that propose that the domestication phenotype was initially acquired by japonica, the underlying alleles then transferred by introgression to other pre-domesticated populations, giving the indica and aus varieties. Identifying the impact of past gene flow on cultivated rice genomes is therefore crucial to distinguishing between these models and understanding the domestication history of rice. To this end, we used population-scale polymorphism data to identify the progenitor gene pools of indica, japonica and aus. Variation shared among the cultivated groups but absent from at least one progenitor population was identified, and genomic blocks putatively transferred by gene flow among cultivated groups mapped.ResultsIntrogression signals were absent at the major domestication loci (Prog1, Rc, qSH1, qSH3, Sh4) of indica and aus, indicating that these loci were unaffected by gene flow from japonica. Other domestication-related loci (Ghd7, LABA1, Kala4, LG1) show signals of introgression from japonica or indica to aus. There is a strong signal for LABA1 in japonica, possibly indicating introgression from indica. The indica genome is the least affected by gene flow, with just a few short regions with allelic frequencies slightly altered by introgression from japonica.ConclusionIntrogression has occurred during the evolution of cultivated rice, but was not responsible for transfer of the key domestication alleles between the cultivated groups. The results are therefore consistent with models in which japonica, indica and aus were domesticated independently, with each of these cultivated groups acquiring the domestication alleles from standing variation in wild rice, without a significant contribution from inter-group gene flow.Electronic supplementary materialThe online version of this article (10.1186/s12862-018-1180-7) contains supplementary material, which is available to authorized users.

show abstract

Section: Resultsmentioning

confidence: 99%

Role of genetic introgression during the evolution of cultivated rice (Oryza sativa L.)

Civáň

Brown

2018

BMC Evol Biol

View full text Add to dashboard Cite

show abstract

“…Species distribution models (SDMs) are based on niche theory to analyze the correlation between species occurrences and environmental factors, then the results are projected in geographical space to predict the ecologically potentially suitable area of the species [14]. At present, the MaxEnt model, Climex model, Bioclim model, Genetic Algorithm for Ruleset Prediction and so on are the most used ecological niche models [15][16][17]. The MaxEnt model has the advantages of having a simple operation, high prediction accuracy, and strong explanatory power [18,19].…”

Section: Introductionmentioning

confidence: 99%

Response of Extremely Small Populations to Climate Change—A Case of Trachycarpus nanus in Yunnan, China

Wang,

et al. 2024

Biology

View full text Add to dashboard Cite

Climate change affects the geographical distribution of plant species. Rare Trachycarpus nanus with a narrow distribution range, high medicinal value and extremely small population is facing increasing extinction risks under global climate change. In this study, 96 recorded occurrences and 23 environmental factors are used to predict the potential suitable area of T. nanus based on the optimized MaxEnt (3.4.4) model and ArcGIS (10.7) software. The results show that when the parameters are FC = LQ and RM = 1, the MaxEnt model is optimal and AUC = 0.946. The distribution patterns were predicted in the past, present, and four future phases, i.e., 2021–2040 (2030), 2041–2060 (2050), 2061–2080 (2070), and 2081–2100 (2090). The main factors are the annual precipitation (bio12), mean temperature of the coldest quarter (bio11), temperature seasonality (bio4), precipitation of the wettest quarter (bio16), and isothermality (bio3). The potential distribution of T. nanus is primarily concentrated in central Chuxiong, encompassing a total potential suitable area of 5.65 × 104 km2. In historical periods, the total habitat area is smaller than that in the present. In the future, the potential suitable area is generally increased. The centroid analysis shows that T. nanus will move to a high-altitude area and to the southeast. But its dispersal capacity may not keep up with the climate change rate. Therefore, additional protection sites for this species should be appropriately established and the habitat connectivity should be enhanced.

show abstract

“…GCMs available for the three Representative Concentration Pathways, RCP 2.in a particular area, based on crop marginal and optimum climate parameters (temperature and rainfall)(Ramirez-Villegas et al 2011b). EcoCrop works for rainfed systems and it has been widely used in different studies to evaluate future climatic impacts on crops(Eitzinger et al 2014;Hunter and Crespo 2019;Jarvis et al 2012;Semwal et al 2016). EcoCrop calculates the probability of current and future climatic suitability (on a 0 to 100 scale) based on temperature and rainfall independently as well as an overall probability given by the product of both temperature and precipitation probabilities.…”

mentioning

confidence: 99%

Action needed for staple crops in the Andean-Amazon foothills because of climate change

Beltrán-Tolosa

Navarro-Racines

Pradhan

et al. 2020

Mitig Adapt Strateg Glob Change

View full text Add to dashboard Cite

The Andean-Amazon foothills region, shaped by Andean moist forests and Amazon forests in southwestern Colombia, Napo province in Ecuador, and Ucayali Province and Napo Basin in Peru, provides local and global ecosystem services as food, water, world climate regulation, water purification, and carbon absorption. However, it faces major problems of land-use change that are exacerbated by climate change that affects these ecosystem services. For instance, conventional agriculture contribute to deforestation, soil degradation, and biodiversity loss, which might be further aggravated by climate changeinduced droughts, thus reducing staple crop production and, consequently, food security. Cassava (Manihot esculenta Crantz), maize (Zea mays L.), and plantain (Musa paradisiaca L.) are major staple crops in the region. They play a key role for food security and local farmers' income but are highly exposed to climate risks. This article aims to quantify the level of exposure to climate change (measured as climatic suitability) of these crops in the Andean-Amazon foothills by using the EcoCrop model by the 2030s, 2050s, and 2080s under Representative Concentration Pathway 2.6, 4.5, and 8.5 scenarios. EcoCrop results showed that, whereas cassava will not lose climatic suitability, maize will lose more than half of its current suitable area, and plantain will gain and lose area, which would affect local food security. Globally, these results are important in highlighting adaptive and cost-effective strategies in agriculture and suggest that agricultural crop diversification may improve resilience by promoting the use of local crops varieties.

show abstract

Wild rice (Oryza spp.) germplasm collections from gangetic plains and eastern region of India: Diversity mapping and habitat prediction using ecocrop model

Cited by 6 publications

References 12 publications

Role of genetic introgression during the evolution of cultivated rice (Oryza sativa L.)

Role of genetic introgression during the evolution of cultivated rice (Oryza sativa L.)

Response of Extremely Small Populations to Climate Change—A Case of Trachycarpus nanus in Yunnan, China

Action needed for staple crops in the Andean-Amazon foothills because of climate change

Contact Info

Product

Resources

About