ArticleBMC plant biology2019
Non-linear regression models for time to flowering in wild chickpea combine genetic and climatic factors.
Article in BMC plant biology, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 10 papers.
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10 citing papers in PubMed, 31 citations in OpenAlex.
- Article
- How heavy metal stress affects the growth and development of pulse crops: insights into germination and physiological processes.3 Biotech · 2023Review
- Modeling of Flowering Time inPlants (Basel, Switzerland) · 2022Article
- Harnessing the hidden allelic diversity of wild Cicer to accelerate genomics-assisted chickpea crop improvement.Molecular biology reports · 2022Review
- Editorial: Bioinformatics of Genome Regulation, Volume I.Frontiers in genetics · 2021Article
- Automated discretization of 'transpiration restriction to increasing VPD' features from outdoors high-throughput phenotyping data.Plant methods · 2020Article
- Editorial: Bioinformatics of Genome Regulation and Systems Biology.Frontiers in genetics · 2020Article
- Genomics research at Bioinformatics of Genome Regulation and Structure\ Systems Biology (BGRS\SB) conferences in Novosibirsk.BMC genomics · 2019Article
- Tracking microhabitat temperature variation with iButton data loggers.Applications in plant sciences · 2019Article
- Two Loci,Frontiers in plant science · 2019Article
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Authors and funding
9 authors at 6 institutions in 4 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundAccurate prediction of crop flowering time is required for reaching maximal farm efficiency. Several models developed to accomplish this goal are based on deep knowledge of plant phenology, requiring large investment for every individual crop or new variety. Mathematical modeling can be used to make better use of more shallow data and to extract information from it with higher efficiency. Cultivars of chickpea, Cicer arietanum, are currently being improved by introgressing wild C. reticulatum biodiversity with very different flowering time requirements. More understanding is required for how flowering time will depend on environmental conditions in these cultivars developed by introgression of wild alleles.
resultsWe built a novel model for flowering time of wild chickpeas collected at 21 different sites in Turkey and grown in 4 distinct environmental conditions over several different years and seasons. We propose a general approach, in which the analytic forms of dependence of flowering time on climatic parameters, their regression coefficients, and a set of predictors are inferred automatically by stochastic minimization of the deviation of the model output from data. By using a combination of Grammatical Evolution and Differential Evolution Entirely Parallel method, we have identified a model that reflects the influence of effects of day length, temperature, humidity and precipitation and has a coefficient of determination of R
conclusionsWe used our model to test two important hypotheses. We propose that chickpea phenology may be strongly predicted by accession geographic origin, as well as local environmental conditions at the site of growth. Indeed, the site of origin-by-growth environment interaction accounts for about 14.7% of variation in time period from sowing to flowering. Secondly, as the adaptation to specific environments is blueprinted in genomes, the effects of genes on flowering time may be conditioned on environmental factors. Genotype-by-environment interaction accounts for about 17.2% of overall variation in flowering time. We also identified several genomic markers associated with different reactions to climatic factor changes. Our methodology is general and can be further applied to extend existing crop models, especially when phenological information is limited.
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