Identification of quantitative trait loci for seed storability in rice (Oryza sativa L.)

In the present study, quantitative trait loci (QTLs) controlling seed storability based on relative germination rate (%) were dissected using a saturated linkage map and a recombinant inbred lines (RILs) derived from a cross of japonica cultivar Asominori (Oryza sativa L.) and indica cultivar IR24 (Oryza sativa L.). A total of three QTLs (qRGR-1, qRGR-3 and qRGR-9) were detected on chromosomes 1, 3 and 9 with LOD score ranging from 3.45 to 6.95 and the phenotypic variance explained from 16.72% to 28.63%. The IR24 alleles were all associated with seed storability at all the three QTLs. The existence of these QTLs was confirmed using IR24 chromosome segment substitution lines (CSSLs) in Asominori genetic background (AIS). By QTL comparative analysis, the QTL, qRGR-9 on chromosomes 9 appeared to be consistent with another rice population, this region may provide an important region for isolating this responsible gene. These results also provide the possibilities of enhancing Seed storability in rice breeding program by marker-assisted selection (MAS) and pyramiding QTLs. Y. Xue and S. Q. Zhang—joint first authors.     

Segregation and associations of enological and agronomic traits in Graciano × Tempranillo wine grape progeny (Vitis vinifera L.)

The main objective of this research was the evaluation of the variability present in a segregating wine grape population derived from a cross between Graciano × Tempranillo, two Spanish varieties, in order to select improved genotypes with potential for producing high-quality wines in a climate change scenario. For that purpose, the phenotypic segregation of 16 agronomic traits related to production and phenology and 11 enological traits related to technical and phenolic maturity was studied in the progeny for three consecutive years. All traits presented transgressive segregation and continuous variation. Year effect was significant for all traits except total, extractable and skin anthocyanins content. However, a high level of genotype consistency for enological traits was revealed by repeatabilities and correlations between years. Significant correlations among traits were observed but most associations were weak. Furthermore, the CAPS (Cleaved Amplified Polymorphic Sequence) marker for the VvmybA genotype was tested to determine whether it would be useful in indirect selection for berry anthocyanins content. The results showed that the number of homozygous and heterozygous genotypes for the functional colour allele adjusted to a 1:1 segregation ratio, and that homozygous genotypes had significantly higher anthocyanins content. Principal component analysis found eight variables that contributed up to 80 % of the phenotypic variability present in the population. Seven groups of hybrids were distinguished based on ripening time, cluster weight, berry weight and anthocyanins content by cluster analysis; and fourteen genotypes were pre-selected for further research.     

Identification and Analysis of Fiber Quality and Yield Related Traits of Interspecific (Gossypium hirsutum L. × G. barbadense L.) Hybrids

[Objective] The aim of this study is to study the hereditary of heterosis of fiber quality and yield-related traits in the upland-island interspecific hybrids, and breed new interspecific hybrid varieties with high yield and fine fiber quality. [Method] In this study, 12 upland cotton materials and 5 sea-island cotton materials were selected to determine the fiber quality and yield traits of their parents and F₁ in Lin’an, Zhejiang and Sanya, Hainan. [Result] It was found that fiber length and fiber strength of F₁ (Gossypium hirsutum × G. barbadense) generally had significant mid-parent heterosis (MPH), some hybrid combinations showed strong over-parent heterosis (OPH), fiber length had a small coefficient of variation between the two places and could be stably inherited. And in terms of yield, seed cotton weight, lint weight, and lint percentage of some upland-island hybrids had MPH, but they were still significantly lower than those of upland cotton parents. [Conclusion] Two long-staple cotton hybrid combinations T035 and T044 with 5A grade high-quality were obtained, and an excellent material of G. barbadense Ta10-280 was screened. This study provides valuable data for the genetic law of fiber quality heterosis of upland-island hybrid cotton.     

Characterization of a γ-tocopherol methyltransferase mutant gene in wild (Carthamus oxyacanthus M. Bieb.) and cultivated safflower (C. tinctorius L.)

Safflower (Carthamus tinctorius L.) seeds contain a high proportion of tocopherols (>90 %) in the α-tocopherol form. A mutant with a high concentration of γ-tocopherol (>85 %) was identified in germplasm of wild safflower (Carthamus oxyacanthus M. Bieb.) that showed strong introgression of C. tinctorius, which allowed selection of individuals of both species with high concentrations of either α- or γ-tocopherol. The trait is controlled by a γ-tocopherol methyltransferase (γ-TMT) locus. The objective of this research was to identify γ-TMT sequence mutations associated with the high γ-tocopherol trait. Full length genomic and cDNA sequences of the γ-TMT gene were obtained from plants of C. tinctorius and C. oxyacanthus with both tocopherol profiles. Sequences from high γ-tocopherol plants showed an 11 bp deletion in exon 6 of the γ-TMT gene that disrupted the reading frame and created a premature stop codon, resulting in a predicted protein with a drastically altered amino acid sequence downstream the frameshift site. The data suggested that the frameshift mutation was underlying the γ-TMT loss of function mutant allele that determines the high γ-tocopherol phenotype. The characterized sequence change of 11 bp deletion could be used directly as a functional marker for introgression of the high γ-tocopherol trait into elite safflower cultivars.     

Do floral resources influence pollination rates and subsequent fruit set in pear (Pyrus communis L.) and apple (Malus x domestica Borkh) cultivars?

Pear and apple are among the main fruit crops worldwide. These species can be planted in mixed orchards, and they both depend on insect pollination for fruit set. As pollinating insects are attracted by the floral resources, we investigated nectar and pollen production and chemical composition in four pear (‘Concorde’, ‘Conférence’, ‘Doyenné du Comice’, ‘Triomphe de Vienne’) and five apple (‘Braeburn’, ‘Golden Reinders’, ‘Jonagored’, ‘Pinova’, ‘Wellant’) cultivars commonly grown in Belgium. We also investigated whether insect flower visitation rate and pollination efficiency are linked to floral resource quantity and quality. The pear cultivars flowered one week before the apple cultivars in early spring, and their flowers were about six times less visited by insects. The visitors foraged more on the pollen of the pear trees and the nectar of the apple trees. Pear flowers produced higher volumes of nectar than apple flowers (1.3–3.2 μl vs. 0.4-0.6 μl), but with lower sugar concentration (9.6%-10.8% vs. 28.3%-36.4%). Pear flowers also produced fewer pollen grains per anther than apple flowers (2425–4937 vs. 3284–7919), but these had higher polypeptide (346–362 μg/mg vs. 216–303 μg/mg), amino-acid (40–77 μg/mg vs. 12–18 μg/mg) and phytosterol (21–47 μg/mg vs. 15–43 μg/mg) concentrations. The foraging behavior of the insects is thus better explained by nectar and pollen quality rather than quantity. Despite the differences in flower visitation rates, pollination of both species resulted in valuable fruit production.     

Development of high yielding IR64 × <Emphasis Type="Italic">Oryza rufipogon</Emphasis> (Griff.) introgression lines and identification of introgressed alien chromosome segments using SSR markers

Modern rice varieties that ushered in the green revolution brought about dramatic increase in rice production worldwide but at the cost of genetic diversity at the farmers’ fields. The wild species germplasm can be used for broadening the genetic base and improving productivity. Mining of alleles at productivity QTL from related wild species under simultaneous backcrossing and evaluation, accompanied by molecular marker analysis has emerged as an effective plant breeding strategy for utilization of wild species germplasm. In the present study, a limited backcross strategy was used to introgress QTL associated with yield and yield components from Oryza rufipogon (acc. IRGC 105491) to cultivated rice, O. sativa cv IR64. A set of 12 BC₂F₆ progenies, selected from among more than 100 BC₂F₅ progenies were evaluated for yield and yield components. For plant height, days to 50% flowering and tillers/plant, the introgression lines did not show any significant change compared to the recurrent parent IR64. For yield, 9 of the 12 introgression lines showed significantly higher yield (19–38%) than the recurrent parent IR64. Four of these lines originating from a common lineage showed higher yield due to increase in grain weight and another three also from a common lineage showed yield increase due to increase in grain number per panicle. For analyzing the introgression at molecular level all the 12 lines were analyzed for 259 polymorphic SSR markers. Of the total 259 SSR markers analyzed, only 18 (7.0%) showed introgression from O. rufipogon for chromosomes 1, 2, 3, 5, 6 and 11. Graphical genotypes have been prepared for each line and association between the introgression regions and the traits that increased yield is reported. Based on marker trait association it appears that some of the QTL are stable across the environments and genetic backgrounds and can be exploited universally.     

Genetic diversity and population structure of ‘Khao Kai Noi’, a Lao rice (Oryza sativa L.) landrace,revealed by microsatellite DNA markers

Rice (Oryza sativa L.) is the main food for people in Laos, where it has been grown and eaten since prehistory. Diverse landraces are grown in Laos. ‘Khao Kai Noi’, a landrace favored for its eating quality, is held in the nationwide collection of traditional landraces in the Lao national genebank. Genetic diversity is crucial for sustainable use of genetic resources and conservation. To investigate the genetic diversity of ‘Khao Kai Noi’ for conservation, we genotyped 70 accessions by using 23 polymorphic simple sequence repeat markers. The markers generated 2 to 17 alleles (132 in total), with an average of 5.7 per locus. The total expected heterozygosity over all ‘Khao Kai Noi’ accessions was 0.271. Genetic variation was largest among accessions and smallest within accessions. Khao Kai Noi accessions were classified into three different genetic backgrounds, but there was unclear association between the three inferred population and name subgroups and geographical distribution. Most of the accessions were clustered with temperate japonica and showed genetic relatedness to rice from neighboring provinces of Vietnam, suggesting a Vietnamese origin. The results of this study will contribute to the conservation, core collection and future breeding of the Khao Kai Noi population.     

Assessment of heterotic patterns of tropical low-nitrogen–tolerant maize (Zea mays L.) inbred lines using testcross performance,morphological traits and SNP markers

Breeding efforts in West and Central Africa (WCA) have focused on the development of Low-N-tolerant (LNT) maize inbreds and their classification into heterotic groups. This study was conducted to classify LNT maize lines into heterotic groups using testcross performance, morphological and SNP markers and to compare the consistency of groupings by the three methods. Thirty-six LNT inbreds were crossed to two contrasting inbred testers to generate 72 testcrosses that were evaluated under low-N conditions in Nigeria in 2014. Also, the 36 inbreds and the two testers were evaluated for per se performance under similar conditions as the testcrosses in 2014 and genotyped in 2015 using 1,123,196 SNP markers. Based on testcross performance, 33 of the 36 LNT inbreds were grouped by the two testers. Morphological characterization from per se performance and genetic relationship by SNP markers classified the inbreds into four groups that were inconsistent with their pedigree. Correlation analysis showed non-concurrence of the three grouping methods. However, information from these groupings would assist in reducing the number of crosses to be made and evaluated.     

Genotype × environment interaction and yield stability in barley (Hordeum vulgare L.) genotypes in the central highland of Ethiopia

Journal of Crop Science and Biotechnology - Barley is one of the most important cereal crops cultivated over a wider environment in the diverse agro-ecologies in Ethiopia. Study on genotype by...     

Identification of QTLs for stay green trait in wheat (<Emphasis Type="Italic">Triticum aestivum</Emphasis> L.) in the ‘Chirya 3’ × ‘Sonalika’ population

Stay green or delayed senescence is considered to play a crucial role in grain development in wheat when assimilates are limited. We identified three QTLs for stay green on the chromosomes 1AS, 3BS and 7DS using a recombinant inbred (RI) population developed by making crosses between the stay green parent ‘Chirya 3’ and non-stay green ‘Sonalika’. The RI lines were evaluated in natural field conditions for 2 years in replicated trial. The QTL on chromosome 1A was identified in both the years, while the QTLs on 3BS and 7DS were identified only in 1st and 2nd year, respectively. The QTLs explained up to 38.7% of phenotypic variation in a final simultaneous fit. The alleles for higher stay green values derived from the stay green parent ‘Chirya 3’. The QTLs were named as QSg.bhu-1A, QSg.bhu-3B and QSg.bhu-7D. The QTL QSg.bhu-3B and QSg.bhu-7D were placed in the 3BS9-0.57-0.78 and 7DS5-0.36-0.61 deletion bins, respectively.     

A multi-trait multi-environment QTL mixed model with an application to drought and nitrogen stress trials in maize (Zea mays L.)

Despite QTL mapping being a routine procedure in plant breeding, approaches that fully exploit data from multi-trait multi-environment (MTME) trials are limited. Mixed models have been proposed both for multi-trait QTL analysis and multi-environment QTL analysis, but these approaches break down when the number of traits and environments increases. We present models for an efficient QTL analysis of MTME data with mixed models by reducing the dimensionality of the genetic variance–covariance matrix by structuring this matrix using direct products of relatively simple matrices representing variation in the trait and environmental dimension. In the context of MTME data, we address how to model QTL by environment interactions and the genetic basis of heterogeneity of variance and correlations between traits and environments. We illustrate our approach with an example including five traits across eight stress trials in CIMMYT maize. We detected 36 QTLs affecting yield, anthesis-silking interval, male flowering, ear number, and plant height in maize. Our approach does not require specialised software as it can be implemented in any statistical package with mixed model facilities.     

The effect of in vivo and in vitro applications of ethrel and GA<Subscript>3</Subscript> on sex expression in bitter melon (<Emphasis Type="Italic">Momordica charantia</Emphasis> L.)

Bitter melon (Momordica Charantia L.) is an important vegetable crop with nutritional and medicinal qualities. As a member of cucurbitaceae it is monoecious with varying proportions of staminate and pistillate flowers. This study was undertaken to determine the effects of various applications of ethrel and gibberellic acid (GA₃) on sex modification in M. charantia. In the first set of experiments, various concentrations of hormones were added to the seed germination medium, in the second, adult plants growing in the field were sprayed with aqueous solutions of ethrel or GA₃ three times at three-day intervals. The number and sex of open flowers was recorded daily for 60 days after the first flower opened and total number of staminate and pistillate flowers was calculated at the end of the experiment. The highest frequency (29.5%) of pistillate flowers was observed in plants treated with 500 ppm ethrel at germination. Similarly, spraying of adult plants with 100 ppm GA₃ increased the proportion of pistillate flowers to 26% relative to 15% in untreated controls. Both ethrel and GA₃ induced significantly higher number of pistillate flowers than control. In vitro hormone application during seed germination was much more successful than spraying of field grown plants.     

Farmers’ management of peanut (Arachis hypogaea L.) diversity,their varietal preference traits and uses in Southern and Central Benin

Journal of Crop Science and Biotechnology - Peanut (Arachis hypogaea L.) is one of the major oilseed legumes contributing to food security in Benin. Unfortunately, several constraints hamper its...     

Genetic effects and genotype × environment interactions for cooking quality traits in Indica-japonica crosses of rice (Oryza sativa L.)

Indica-japonica hybridization is an important approach for developing superior performing hybrids in rice (Oryza sativa L.). In view of the scanty information available on cooking quality characters in indica-japonica crosses, an investigation was undertaken to estimate genetic and genotype × environment variance and covariance components of amylose content, gel consistency and alkali digestion value, and to determine the relative importance of direct genetic effects, maternal genetic effects and cytoplasmic effects in the genetic variations of the three quality characters. Two indica photo-sensitive genic male sterile (PGMS) lines and four japonica varieties were used as parents to make crosses. Genetic model with genotype × environment interactions for triploid endosperm was used for genetic studies of the three cooking quality characters. Variance component analysis revealed that genetic variations of the three characters were mainly attributable to direct additive and maternal additive effects, and the three traits had significant direct and maternal heritabilities. Genotype × environment interactions were mainly dominance × environment (including direct dominance × environment and maternal dominance × environment) and cytoplasm × environment interactions. Environment factors could only affect the expression extent of dominant genes, without changing their directions. Predicted values of genetic effects indicated that the parental lines, ‘VI-70’ and ‘H9304-1’, appeared to be best for amylose content, ‘T 1950’ and ‘Suxuan’ appeared to be best for gel consistency and alkali digestion value. This revised version was published online in August 2006 with corrections to the Cover Date.     

Spanish onion landraces (Allium cepa L.) as sources of germplasm for breeding calçots: a morphological and molecular survey

Calçots are the immature floral stems of second-year resprouts of the ‘Blanca Tardana de Lleida’ (BTL) onion landrace, and to date, breeding has used only a few populations. So, we aimed to increase our knowledge of the variability of BTL and to explore its characteristics and genetic dissimilarity with other varieties that might be used in calçot breeding programs. We analyzed the agronomic and morphological traits of four populations of BTL, two synthetic varieties of BTL, 20 prestigious Spanish landraces, and 4 exotic onion landraces. Furthermore, we used three combinations of AFLP primers and seven microsatellites to analyze their genetic background. The Spanish landraces (including BTL) shared a large part of their genetic background, which showed considerable variability (heterozygosity around 0.5). Morphological traits also had high variability, so multiple breeding strategies can be used, ranging from intravarietal selection to crossings between populations to take advantage of the heterosis, both for the bulb and for the calçot improvement.     

Genetic analysis of high amylose content in maize (<Emphasis Type="Italic">Zea mays</Emphasis> L.) using a triploid endosperm model

Traditionally, high amylose starch (HAS) from maize (Zea mays L.) has been mainly used as an ingredient in gum candies and as an adhesive for corrugated cardboard. Two recent advances have increased interest in the use of HAS. The first one has been the development of starch-based biodegradable thermo plastics. Second, high amylose maize is a source of resistant starch (RS), a type of starch that resists digestion. As a food additive, consumers can benefit from added RS since it will lower the glycemic index and the risk of colon cancer in accordance with recent research in food science. Normal maize has about 25% amylose starch. A maize inbred line, GEMS-0067 (Reg. no GP-550, PI 643420) possesses high amylose modifier gene(s) that, together with the recessive amylose extender (ae) gene, raises the starch amylose percentage to at least 70%. The objective of this study was to determine the gene effects, non-allelic interactions and heritability of high amylose content in maize using Bogyo’s triploid model. Nine populations were derived from a cross between H99ae, a maize inbred line with 55% amylose starch, and GEMS-0067. Data were collected from two locations in Missouri (MO) and South Dakota (SD) over 2 years (2005 and 2006). Incomplete dominance explained some of the inheritance of HAS. Maternal effects were also detected. The triploid models for MO and SD were separately established based on the corresponding data in 2005 and 2006. The additive and type 1 dominance effects in MO, and the additive, type 1 dominance, type 2 dominance, and additive × additive in SD were significantly different from zero meaning that those effects played an important role in amylose synthesis. Both broad-sense and narrow-sense heritabilities were high indicating that high amylose content could be effectively selected for in a segregating population.