Chickpea (Cicer arietinum L.) is a key legume crop grown in many semi-arid areas. Traditionally, chickpea is a rainfed spring crop, but in certain countries it has become an irrigated crop. The main objective of this study was to evaluate the ability of Unmanned Aerial Systems (UAS) imaging platform with an integrated RGB camera to provide estimations of leaf area index (LAI), biomass, and yield for chickpea during the irrigation period. Two field trials were conducted in 2019 and 2020, in which chickpea plants were subjected to five and six irrigation regimes, respectively. Eight vegetation indexes (VIs) and three morphological parameters were estimated from the RGB images. In parallel, biomass was determined, LAI was measured manually, and yield was determined at full maturity. In total, 294 plant samples were acquired and analyzed over the two years. Firstly, each of the VIs and morphological parameters were correlated separately against the two biophysical parameters and yield. Then, all the VIs and morphological parameters were analyzed together, and two statistical models, partial least squares regression (PLS-R) and support vector machine (SVM); were used to predict biomass and LAI. The yield was predicted using multi-linear regression (MLR). When each index or morphological parameter was analyzed separately, plant height and some of the VIs provided adequate predictions of the biophysical parameters in 2019 (R2 values ≥ 0.50) but failed (R2 values ≤ 0.25) in 2020. The integration of the VIs with the morphological parameters and the use of PLS-R and SVM models increased the accuracy level for both biophysical parameters (R2 ranged from 0.31 to 0.96) and mitigated the lack of consistency between the years. The SVM model was superior to the PLS-R model in both biophysical parameters. The R2 values for the combined 2019 and 2020 biomass model increased, at the model-testing stage, from 0.62 to 0.96 and the RMSE values dropped from 1778 to 490 kg ha−1. The ability of the SVM model to estimate chickpea biomass and LAI can provide convenient support for different management decisions, including timing and amount of irrigation and harvest date.

Abstract Two opposing models currently dominate Near Eastern plant domestication research. The core area-one event model depicts a knowledge-based, conscious, geographically centered, rapid single-event domestication, while the protracted-autonomous model emphasizes a non-centered, millennia-long process based on unconscious dynamics. The latter model relies, in part, on quantitative depictions of diachronic changes (in archaeological remains) in proportions of spikelet shattering to non-shattering, towards full dominance of the non-shattering (domesticated) phenotypes in cultivated cereal populations. Recent wild wheat genome assembly suggests that shattering and non-shattering spikelets may originate from the same (individual) genotype. Therefore, their proportions among archaeobotanical assemblages cannot reliably describe the presumed protracted-selection dynamics underlying wheat domestication. This calls for a reappraisal of the ?domestication syndrome? concept associated with cereal domestication.

A major gene controls flowering pattern in peanut, possibly encoding a TFL1-like. It was subjected to gain/loss events of a deletion and changes in mRNA expression levels, partly explaining the evolution of flowering pattern in Arachis.

Abstract Domestication is considered as a model of adaptation which can be used to draw conclusions about the modus operandi of selection in natural systems. Investigating domestication may give insights on how plants react to different intensities of human manipulation, which has direct implication for the ongoing efforts of crop improvement. Therefore, scientists of various disciplines study domestication related questions to understand its biological and cultural bases. We employed RAD-sequencing of 494 pea samples from all wild and domesticated groups to analyse the collection’s genetic structure. Patterns of ancient admixture were investigated by analysis of admixture graphs. We used two complementary approaches, one diversity based and one based on differentiation, to detect selection signatures putatively associated with domestication. Analysis of subpopulation structure of wild Pisum sativum exposed five distinct groups with a notable geographic pattern. Pisum abyssinicum clustered unequivocally within the P. sativum complex without indication for a hybrid origin. We detected 32 genomic regions putatively subjected to selection, 29 in P. sativum ssp. sativum and three in P. abyssinicum. The two domesticated groups did not share regions under selection and did not display similar haplotype patterns within those regions. Wild Pisum sativum is structured into well diverged subgroups. While P. s. ssp. humile is not supported as a taxonomic entity, the so-called 'southern humile' is a genuine wild group. Introgression did not shape the variation observed within the sampled germplam. The two cultivated pea groups display distinct genetic bases of domestication, suggesting two genetically independent domestication events.

The Near East climate ranges from arid to a Mediterranean, under which local wheat landraces have been grown for over millennia, assumingly accumulating a unique repertoire of genetic adaptations. In the current study, we subjected a subset of the Israeli Palestinian Landraces (IPLR) collection (n = 19: durum and bread wheat landraces, modern wheat cultivars, and landraces mixtures) to full-field evaluation. The multifield experiment included a semiarid site (2018–2019, 2019–2020) under low (L) and high (H) supplementary irrigation, and a Mediterranean site (2019–2020). Water availability had a major impact on crop performance. This was reflected in a strong discrimination between environments for biomass productivity and yield components. Compared to landraces, modern cultivars exhibited significantly higher grain yield (GY) across environments (+102%) reflecting the effect of the Green Revolution. However, under the Gilat19 (L) environment, this productivity gap was significantly reduced (only +39%). Five excelling landraces and the durum mix exhibited good agronomic potential across all trails. This was expressed in relatively high GY (2.3–2.85 t ha−1), early phenology (86–96 days to heading) and lodging resistance. Given the growing interest of stakeholders and consumers, these might be considered future candidates for the local artisanal wheat grain market. Yet, this step should be taken only after establishing an adjustable field management protocol.

The rising demand for spelt wheat (Triticum aestivum ssp. spelta) as a high-value grain crop has raised interest in its introduction into non-traditional spelt growing areas. This study aimed to assess adaptive constrains of spelt under short Mediterranean season. At first screening of a wide spelt collection for phenology and allelic distribution at the photoperiod (PPD) and vernalization (VRN) loci was done. In addition an in-depth phenotypic evaluation of a selected panel (n=20) was performed, including agronomically important traits and concentration of grain mineral (GMC) and grain protein (GPC) content. Results from both wide screening and in-depth in panel (group of 18 spelt lines and two bread wheat lines) evaluation shows that the major adaptive constraint for spelt under Mediterranean conditions is late heading, caused by day length sensitivity, as evident from phenology and allelic profile (PPD and VRN). All lines carrying the photoperiod-sensitive allele (PPD-D1b) were late flowering (>120DH). Based on the panel field evaluations those consequently suffer from low grain yield and poor agronomic performances. As for minerals, GMC for all but Zn, significantly correlated with GPC. In general, GMC negatively correlated with yield which complicated the assessment of GMC per-se and challenge the claim for higher mineral content in spelt grains. The exceptions were, Fe and Zn, which did not correlate with yield. Spelt lines showing high Fe and Zn concentration in a high-yield background illustrate their potential for spelt wheat breeding. Improving spelt adaptation to Mediterranean environments could be mediated by introducing the insensitive-PPD-D1a allele to spelt wheat background. Following this breeding path spelt could better compete with bread wheat under short season with limited and fluctuating rain fall.

Aim Genetic diversity is a major determinant for the capacity of species to persist and adapt to their environments. Unravelling the factors affecting genetic differentiation is crucial to understand how genetic diversity is shaped and species may react to changing environments. We investigated the drivers of genetic differentiation and their interplay with the evolutionary history in a wild pea to test how those may have affected the distribution of genetic diversity. Location Mediterranean basin, western Asia. Taxon Pisum sativum (Fabaceae). Methods We employed restriction site associated DNA (RAD) sequencing of a collection of 81 wild pea samples. The influence of environmental factors on genetic differentiation was tested by estimating the association of these factors and genetic variation using gradient forest analysis. Stairwayplots were used to estimate past effective population sizes and clines of allele frequencies were analysed to detect past expansion patterns. Association of single nucleotide polymorphisms with environmental variables was tested to find signatures of local adaptation. Results The effect of the tested factors influencing genetic differentiation was variable among genetic clusters. Climate predictors were most important in all clusters. Land cover was more important in clusters from areas strongly influenced by human land use. We found statistically significant associations of 3623 SNPs with environmental variables. Most of these SNPs were correlated with latitude followed by temperature. Wild peas went through a genetic bottleneck during the last glacial period followed by population recovery. The detected range expansion patterns suggested an eastward range expansion of the European cluster to Turkey and thereof southwards and eastwards. Main conclusion Drivers of genetic differentiation do not act in a uniform manner within a species. The distribution of genetic variation and the processes affecting this distribution have to be viewed in the context of the hierarchical structure of genetic variation and the environment of its entities to understand how genetic diversity was shaped and may change in the future.

A protracted domestication time-frame for cereals in the Near East is widely endorsed by the plant domestication research community. This occurs in tandem with the pre-domestication cultivation concept, which rests on the assumption that human husbandry operations (namely cultivation) exerted selection pressures in favor of domesticated phenotypes (e.g., non-shattering spikes) at the expense of the wild type (WT) shattering phenotype. The protracted domestication model rests on a long series of assumptions of which we address only two: (1) that the archeobotanical assemblages found in Neolithic occupation sites are representative of the managed plant populations from the cultivated fields; (2) that WT (shattering, brittle spikes) and domesticated (non-shattering, non-brittle spikes) stocks were grown for millennia as admixed populations across the Near East before the domesticated (non-shattering) morphotype slowly came to dominate the managed cereal populations. Scrutinizing these assumptions, and their derivatives, we suggest that the proportion of wild vs. domesticated cereal remains in archeobotanical assemblages cannot possibly represent the presumed cultivated plant populations. Moreover, agronomic considerations expose severe methodological and theoretical drawbacks in the protracted domestication reconstruction vis-à-vis the proportions of shattering vs. non-shattering spikelets in archeobotanical assemblages.

Plant breeders and conservationist depend on knowledge about the genetic variation of their species of interest. Pisum fulvum, a wild relative of domesticated pea, has attracted attention as a genetic resource for crop improvement, yet little information about its diversity in the wild has been published hitherto. We sampled 15 populations of P. fulvum from Israeli natural habitats and conducted genotyping by sequencing to analyse their genetic diversity and adaptive state. We also attempted to evaluate the species past demography and the prospects of its future reaction to environmental changes. The results suggest that genetic diversity of P. fulvum is low to medium and is distributed between well diverged populations. Surprisingly, with 56 % in the total population the selfing rate was found to be significantly lower than expected from a species that is commonly assumed to be a predominant selfer. We found a strong genetic bottleneck during the last glacial period and only limited patterns of isolation by distance and environment, which explained 13 %–18 % of the genetic variation. Despite the weak signatures of genome-wide IBE, 1,354 markers were significantly correlated with environmental factors, 1,233 of which were located within known genes with a nonsynonymous to synonymous ratio of 0.382. Species distribution modelling depicted an ongoing fragmentation and decreased habitable area over the next 80 years under two different socio-economic pathways. Our results suggest that complex interactions of substantial drift and selection shaped the genome of P. fulvum. Climate changeis likely to cause further erosion of genetic diversity in P. fulvum. Systematic ex-situ conservation may be advisable to safeguard genetic variability for future utilization of this species.

A “cultivation prior to domestication”, or a “pre-domestication cultivation” phase features in many reconstructions of Near Eastern plant domestication. Archaeobotanists who accept this notion search for evidence to support the assumption regarding a wild plant’s cultivation phase, which in their view, preceded and eventually led to plant domestication. The presence of non-crop plant remains in the archaeobotanical record interpreted as arable weeds, i.e., weeds of cultivation, is viewed as a strong argument in support of the pre-domestication cultivation phase. Herein, we show that the simple practice of harvest by hand-pulling (uprooting) has the potential to secure an almost weed-free harvest. Indeed, rather clean (weed-free) Neolithic seed caches from a range of relevant sites were documented in archaeobotanical reports. These reports, alongside ethnographic observations suggest that (in certain cases) ancient harvest may have been carried out by selective hand-pulling. Hence, one has no reason to view archaeobotanical assemblages from occupation sites as fully representative of cultivated fields. Therefore, the concept of “arable—pre-domestication weeds”, its logic, and its potential contribution to the prevailing reconstructions of Near Eastern plant domestication need be reconsidered.

Plant domestication is often discussed as a form of mutualism between humans and crop plants. Ethnographies provide records of a multitude of adaptive strategies employed by human societies with varying degrees of reliance on manipulation of wild plant resources. These manipulations have included vegetation clearance, controlled burning, pruning, coppicing, tilling, sowing and more. Such activities can be viewed as cultivation of wild plants (known as “pre-domestication cultivation” in the Near Eastern research milieu, or in a somewhat different framework as “low level food production”), often considered a necessary step leading to domestication. Since cultivated fields are constructed niches, Niche Construction Theory (NCT) has recently been recruited to provide a theoretical evolutionary framework for explaining plant domestication. This review on plant domestication in the Near East discusses elements that we consider intimately related to the abovementioned trajectories of thought: the concept of “pre-domestication cultivation”; the view that domesticated plants arose via evolutionary mutualism; and the conceptualization of plant domestication in terms of NCT. We review and discuss the logic of these approaches, their biological, cultural and archaeological foundations; and highlight their association with the old “dump heap” scenario. We argue that based on the biology of the Near Eastern crop plants and the available archaeological evidence, these approached and respective arguments are inadequate. Rather, we contend that the biological idiosyncrasies of the Near Eastern founder crops depict a picture of a knowledge-based and conscious domestication that emanated from the newly emerging Neolithic world view and Humans-World relationships.

Abstract Isolation by environment (IBE) is a widespread phenomenon in nature. It is commonly expected that the degree of difference among environments is proportional to the level of divergence between populations in their respective environments. It is therefore assumed that a species' genetic diversity displays a pattern of IBE in the presence of a strong environmental cline if gene flow does not mitigate isolation. We tested this common assumption by analysing the genetic diversity and demographic history of Pisum fulvum, which inhabits contrasting habitats in the southern Levant and is expected to display only minor migration rates between populations, making it an ideal test case. Ecogeographical and subpopulation structure were analysed and compared. The correlation of genetic with environmental distances was calculated to test the effect of isolation by distance and IBE and detect the main drivers of these effects. Historical effective population size was estimated using stairway plot. Limited overlap of ecogeographical and genetic clustering was observed, and correlation between genetic and environmental distances was statistically significant but small. We detected a sharp decline of effective population size during the last glacial period. The low degree of IBE may be the result of genetic drift due to a past bottleneck. Our findings contradict the expectation that strong environmental clines cause IBE in the absence of extensive gene flow.

Pisum fulvum is an annual legume native to Syria, Lebanon, Israel and Jordan. In certain locations, P. fulvum individuals were documented to display a reproductive dimorphism – amphicarpy, with both above and below ground flowers and pods. Herein we aimed to study the possible role of soil texture on amphicarpy in P. fulvum, to investigate the possible bio-climatic associations of P. fulvum amphicarpy and to identify genetic markers associated with this phenotype. A set of 127 germplasm accessions sampled across the Israeli distribution range of the species was phenotyped in two common garden nurseries. Land use and bioclimatic data were used to delineate the eco-geographic clustering of accession's sampling sites. Single nucleotide polymorphism (SNP) markers were employed in genome-wide association study to identify associated loci. Amphicarpy was subject to strong experimental site x genotype interaction with higher phenotypic expression in fine textured soil relative to sandy loam. Amphicarpy was more prevalent among accessions sampled in eastern Judea and Samaria and was weakly associated with early phenology and relatively modest above ground biomass production. Twelve SNP markers were significantly associated with amphicarpy, each explaining between 8 and 12 % of the phenotypic variation. In P. fulvum amphicarpy seems to be a polygenetic trait controlled by an array of genes that is likely to be affected by environmental stimuli. The probable selective advantage of the association between amphicarpy and early flowering is in line with its relative prevalence in drought prone territories subject to heavy grazing.

Abstract BACKGROUND For over a century, genetic diversity of wheat worldwide was eroded by continual selection for high yields and industrial demands. Wheat landraces cultivated in Israel and Palestine demonstrate high genetic diversity and a potentially wide repertoire of adaptive alleles. While most Israeli-Palestinian wheat landraces were lost in the transition to ?Green Revolution? semi-dwarf varieties, some germplasm collections made at the beginning of the 20th century survived in gene banks and private collections worldwide. However, fragmentation and poor conservation place this unique genetic resource at a high risk of genetic erosion. Herein, we describe a long-term initiative to restore, conserve, and characterize a collection of Israeli and Palestinian wheat landraces (IPLR). RESULTS We report on (i) the IPLR construction (n = 932), (ii) the historical and agronomic context to this collection, (iii) the characterization and assessment of the IPLR's genetic diversity, and (iv) a data comparison from two distinct subcollections within IPLR: a collection made by N. Vavilov in 1926 (IPLR-VIR) and a later one (1979?1981) made by Y. Mattatia (IPLR-M). Though conducted in the same eco-geographic space, these two collections were subjected to considerably different conservation pathways. IPLR-M, which underwent only one propagation cycle, demonstrated marked genetic and phenotypic variability (within and between accessions) in comparison with IPLR-VIR, which had been regularly regenerated over ?90?years. CONCLUSION We postulate that long-term ex?situ conservation involving human and genotype???environment selection may significantly reduce accession heterogeneity and allelic diversity. Results are further discussed in a broader context of pre-breeding and conservation. ? 2019 Society of Chemical Industry

Fall-sown chickpea (Cicer arietinum L.) yields are often double those of spring-sown chickpea in regions with Mediterranean climates that have mild winters. However, winter kill can limit the productivity of fall-sown chickpea. Developing cold-tolerant chickpea would allow the expansion of the current geographic range where chickpea is grown and also improve productivity. The objective of this study was to identify the quantitative trait loci (QTL) associated with cold tolerance in chickpea. An interspecific recombinant inbred line population of 129 lines derived from a cross between ICC 4958, a cold-sensitive desi type (C. arietinum), and PI 489777, a coldtolerant wild relative (C. reticulatum Ladiz), was used in this study. The population was phenotyped for cold tolerance in the field over four field seasons (September 2011-March 2015) and under controlled conditions two times. The population was genotyped using genotypingby- sequencing, and an interspecific genetic linkage map consisting of 747 single nucleotide polymorphism (SNP) markers, spanning a distance of 393.7 cM, was developed. Three significant QTL were found on linkage groups (LGs) 1B, 3, and 8. The QTL on LGs 3 and 8 were consistently detected in six environments with logarithm of odds score ranges of 5.16 to 15.11 and 5.68 to 23.96, respectively. The QTL CT Ca-3.1 explained 7.15 to 34.6% of the phenotypic variance in all environments, whereas QTL CT Ca-8.1 explained 11.5 to 48.4%. The QTLassociated SNP markers may become useful for breeding with further fine mapping for increasing cold tolerance in domestic chickpea. © Crop Science Society of America.

BACKGROUND: For over a century, genetic diversity of wheat worldwide was eroded by continual selection for high yields and industrial demands. Wheat landraces cultivated in Israel and Palestine demonstrate high genetic diversity and a potentially wide repertoire of adaptive alleles. While most Israeli-Palestinian wheat landraces were lost in the transition to "Green Revolution" semi-dwarf varieties, some germplasm collections made at the beginning of the 20 century survived in genebanks and private collections worldwide. However, fragmentation and poor conservation place this unique genetic resource at a high risk of genetic erosion. Herein we describe a long-term initiative to restore, conserve and characterize a collection of Israeli and Palestinian wheat landraces (IPLR). RESULTS: (i) a report on the IPLR construction (n=932).; (ii) an historical and agronomic context to this collection; (iii) characterize and assess IPLR's genetic diversity; and (iv) data comparison from two distinct sub-collections within IPLR: a collection made by N. Vavilov in 1926 (IPLR-VIR) and a later one (1979-1981) made by Y. Mattatia (IPLR-M). Though conducted in the same eco-geographic space, these two collections were subjected to considerably different conservation pathways. IPLR-M- which underwent only one propagation cycle- demonstrated marked genetic and phenotypic variability (within and between accessions) in comparison to IPLR-VIR which had been regularly regenerated over ~90 years. CONCLUSION: We postulate that long-term ex-situ conservation involving human and GxE selection may significantly reduce accession heterogeneity and allelic diversity. Results are further discussed in a broader context of pre-breeding and conservation. This article is protected by copyright. All rights reserved.

The increasing demand for spelt products requires the baking industry to develop accurate and efficient tools to differentiate between spelt and bread wheat grains. We subjected a 272-sample spelt-bread wheat set to several potential diagnostic methods. DNA markers for γ-gliadin-D ( GAG56D), γ-gliadin-B ( GAG56B), and the Q-gene were used, alongside phenotypic assessment of ease-of-threshing and near-infrared spectroscopy (NIRS). The GAG56B and GAG56D markers demonstrated low diagnostic power in comparison to the Q-gene genotyping, which showed full accordance with the threshing phenotype, providing a highly accurate distinction between bread wheat and spelt kernels. A highly reliable Q classification was based on a three-waveband NIR model [Kappa (0.97), R-square (0.93)], which suggested that this gene influences grain characteristics. Our data ruled out a protein concentration bias of the NIRS-based diagnosis. These findings highlight the Q gene and NIRS as important, valuable, but simple tools for distinguishing between bread wheat and spelt.

Abstract Chickpea shows a distinct domestication trajectory vis-a-vis pod dehiscence and growth cycle mediated by vernalization insensitivity compared with its companion Near Eastern legumes. Our objectives were: (i) to map the quantitative trait loci (QTLs) associated with vernalization response and seed free tryptophan in domesticated ? wild chickpea progeny and (ii) estimate the genetic correlation between vernalization response and free tryptophan content. A domesticated ? wild chickpea cross was used to document phenotypic segregation in both traits and to construct a skeletal genetic map for QTL detection. A number of vernalization response and seed free tryptophan content QTLs were documented in both F2 and F3 generations. No significant genetic correlation between these two traits was observed. Epistatic relationship between two free tryptophan loci was documented. It is evident that selection for high seed tryptophan is easier to accomplish relative to selection for vernalization insensitivity. This suggests that the two traits were selected independently in antiquity, thereby corroborating earlier claims for conscious selection processes associated with chickpea domestication.

Abstract Chickpea shows a distinct domestication trajectory vis-a-vis pod dehiscence and growth cycle mediated by vernalization insensitivity compared with its companion Near Eastern legumes. Our objectives were: (i) to map the quantitative trait loci (QTLs) associated with vernalization response and seed free tryptophan in domesticated × wild chickpea progeny and (ii) estimate the genetic correlation between vernalization response and free tryptophan content. A domesticated × wild chickpea cross was used to document phenotypic segregation in both traits and to construct a skeletal genetic map for QTL detection. A number of vernalization response and seed free tryptophan content QTLs were documented in both F2 and F3 generations. No significant genetic correlation between these two traits was observed. Epistatic relationship between two free tryptophan loci was documented. It is evident that selection for high seed tryptophan is easier to accomplish relative to selection for vernalization insensitivity. This suggests that the two traits were selected independently in antiquity, thereby corroborating earlier claims for conscious selection processes associated with chickpea domestication.

The Agricultural Revolution and plant domestication in the Near East (among its components) have fascinated generations of scholars. Here, we narrate the history of ideas underlying plant domestication research since the late 19th century. Biological and cultural perspectives are presented through two prevailing models: one views plant domestication as a protracted, unconscious evolutionary mutualistic (noncentric) process. The second advocates a punctuated, knowledge-based human initiative (centric). We scrutinize the research landscape while assessing the underlying evolutionary and cultural mechanisms. A parsimony measure indicates that the punctuated-centric view better accords with archaeological records, and the geobotany and biology of the species, and requires fewer assumptions. The protracted alternative requires many assumptions, does not account for legume biology, fails to distinguish domestication from postdomestication changes, and, therefore, is less parsimonious.