Exploring the Bush yam (Dioscorea praehensilis Benth) as a Source of Agronomic and Quality Trait Genes in White Guinea yam (Dioscorea rotundata Poir) Breeding

Yam (Dioscorea spp.) is an important food security crop in the tropics and subtropics. However, it is characterized by a narrow genetic base within cultivated and breeding lines for tuber yield, disease resistance, and postharvest traits, which hinders the yam breeding progress. Identification of new sources of desirable genes for these traits from primary and secondary gene pools is essential for this crop improvement. This study aimed at identifying potential sources of genes for yield and quality traits in a panel of 162 accessions of D. praehensilis, a semi-domesticated yam species, for improving the major yam species, D. rotundata. Significant differences were observed for assessed traits (p < 0.05), with D. praehensilis genotypes out-performing the best D. rotundata landraces for tuber yield (23.47 t ha−1), yam mosaic virus (YMV) resistance (AUDPC = 147.45), plant vigour (2.43) and tuber size (2.73). The study revealed significant genotypic (GCV) and phenotypic (PCV) coefficients of variance for tuber yield, YMV severity score, and tuber flesh oxidation. We had also a medium-to-high broad-sense heritability (H2b) for most of the traits except for the dry matter content and tuber flesh oxidation. This study identified some promising D. praehensilis genotypes for traits such as high yield potential (WNDpr76, CDpr28, CDPr7, EDpr14, and WNDpr63), resistance to YMV (WNDpr76, CDpr7, EDpr14, CDpr28, and EDpr13), high dry matter content (WNDpr76, CDpr28, and WNDpr24), low tuber flesh oxidation (WNDpr76, CDpr5, WNDpr31, CDpr40, and WNDpr94) and high number of tubers per plant (WNDpr76, CDpr7, CDpr68, CDpr29, and CDpr58). These genotypes could, therefore, be employed in breeding programmes to improve the white Guinea yam by broadening its genetic base.

Molecular characterization and genetic diversity studies of Indian soybean (Glycine max (L.) Merr.) cultivars using SSR markers

Background The genetic base of soybean cultivars in India has been reported to be extremely narrow, due to repeated use of few selected and elite genotypes as parents in the breeding programmes. This ultimately led to the reduction of genetic variability among existing soybean cultivars and stagnation in crop yield. Thus in order to enhance production and productivity of soybean, broadening of genetic base and exploring untapped valuable genetic diversity has become quite indispensable. This could be successfully accomplished through molecular characterization of soybean genotypes using various DNA based markers. Hence, an attempt was made to study the molecular divergence and relatedness among 29 genotypes of soybean using SSR markers. Methods and results A total of 35 SSR primers were deployed to study the genetic divergence among 29 genotypes of soybean. Among them, 14 primer pairs were found to be polymorphic producing a total of 34 polymorphic alleles; and the allele number for each locus ranged from two to four with an average of 2.43 alleles per primer pair. Polymorphic information content (PIC) values of SSRs ranged from 0.064 to 0.689 with an average of 0.331. The dendrogram constructed based on dissimilarity indices clustered the 29 genotypes into two major groups and four sub-groups. Similarly, principal coordinate analysis grouped the genotypes into four major groups that exactly corresponded to the clustering of genotypes among four sub-groups of dendrogram. Besides, the study has reported eight unique and two rare alleles that could be potentially utilized for genetic purity analysis and cultivar identification in soybean. Conclusion In the present investigation, two major clusters were reported and grouping of large number of genotypes in each cluster indicated high degree of genetic resemblance and narrow genetic base among the genotypes used in the study. With respect to the primers used in the study, the values of PIC and other related parameters revealed that the selected SSR markers are moderately informative and could be potentially utilized for diversity analysis of soybean. The clustering pattern of dendrogram constructed based on SSR loci profile displayed good agreement with the cultivar’s pedigree information. High level of genetic similarity observed among the genotypes from the present study necessitates the inclusion of wild relatives, land races and traditional cultivars in future soybean breeding programmes to widen the crop gene pool. Thus, hybridization among diverse gene pool could result in more heterotic combinations ultimately enhancing genetic gain, crop yield and resistance to various stress factors.

APPLICATION OF DIFFERENT METHODOLOGIES IN LENTIL (Lens culinaris MEDIK) BREEDING

Lentil (Lens culinaris Medik.) is a self-pollinating diploid (2n=2x=14) species belonging to the Fabaceae family. It is one of the oldest crops known, with 8,000 to 9,000 years of history and it is among the earliest domesticates from the Near East Fertile Crescent. The seeds have high nutritional value. This crop is an interesting substitute to wheat in cereal rotations but its importance is low due to a lack of suitable varieties with local adaptation. Some of the major problems that Argentinian lentil breeders face are the narrow genetic base of the current cultivated germplasm and its low yield potential. A lentil breeding program was initiated in 2004 to develop new varieties with adaptation to prevalent conditions in growing areas of Argentina. Germplasm was obtained from ICARDA (International Center for Agricultural Research in the Dry Areas) and local producers. Conventional breeding methods using hybridization and selection are being carried out to develop improved varieties, broad the genetic base, and isolate superior recombinant inbred lines. Two new varieties have been obtained, one of the macrosperm type (Boyerito FCA) and the other of the microsperm type (Tacuarita FCA) through the application of mass selection in F2 populations from the cross of selected materials. This program complements traditional breeding methods with biotechnological techniques such as transgenesis, use of molecular markers, in vitro embryo culture combined with the SSD method to shorten the breeding time, and digital phenotyping. Key words: Lentil, conventional methodologies, in vitro embryo culture, biotechnology techniques, digital phenotyping.

Assessment of genetic variability among accessions of okra (Abelmoschus esculentus L. Moench)

Okra yields are low in West and Central Africa and factors including narrow genetic base of available germplasm have been implicated. An assessment of genetic variability among germplasm from various sources and knowledge of trait contributions to these variations is crucial to the success of okra breeding program. Eighteen okra accessions were evaluated during the 2020 cropping season in Nigeria to assess the genotypes for genetic diversity, group the accessions into clusters and identify traits that chiefly accounted for the variations among the genotypes. Data obtained were subjected to analysis of variance (ANOVA), metroglyph and principal component analyses (PCA). ANOVA revealed significant accession mean squares for majority of the measured traits. Metroglyph analysis grouped the accessions into four clusters with members of Cluster IV generally high-yielding, early-maturing and short genotypes. NGB00353 and NGB00356 that were among genotypes with high total index scores were members of Cluster IV. The first four principal components (PCs) accounted for 80% of the total observed variation. PC1 with the highest discriminatory power was loaded with days to budding, internode length, pod yield.plot−1 and the number of pods.plant−1. The variation within and between clusters could be explored in okra breeding program.

Reproductive outputs of two sandalwood landraces with different genetic base and clonality levels in Gunung Sewu, Indonesia

Based on the genetic base and clonality level, sandalwood (Santalum album) formed two types of landraces along with the Gunung Sewu Global Geopark Network in the southern part of Java islands, Indonesia. These two types are represented by Bejiharjo (which has a low genetic base and high clonality) and Bleberan (which has a high genetic base and low clonality) landraces. This study aimed to observe the quality of sandalwood seeds collected from the two landraces to determine the qualified seeds. We collected and tested all produced seeds of fruiting parent trees from August 2019 to March 2020. The physical and physiological quality tests included counting the number of seeds, measuring the seed size, and testing the viability of seeds. The Bleberan landrace produced 9161 seeds with 22.06% of seed viability. Meanwhile, the Bejiharjo produced only 158 seeds, of which all failed to germinate. Lower genetic base and higher clonality increased the inbred progenies, led to inbreeding depression, and decreased seed production and viability. Therefore, the qualified seed from the Bleberan landraces is worth considering to provide future genetic materials.

Agronomical Performances of Angolan Natural Oil Palm Accessions and Interests for Oil Palm Selection in Côte d’Ivoire

In C&ocirc;te d&rsquo;Ivoire, Deli populations, descendants of four oil palms, constituted Group A of the recurrent reciprocal selection. Their genetic base was narrow, an obstacle to long-term genetic progress. Therefore, Angolan oil palm accessions were acquired to broaden Group A&rsquo;s genetic base. Angola selfed and Deli &times; Angola progenies were tested via Angola selfed &times; La M&eacute; and (Deli &times; Angola) &times; La M&eacute; intergroup hybrids for bunch and oil production, height growth, and tolerance to Fusarium in two progeny trials; one in La M&eacute; (C&ocirc;te d&rsquo;Ivoire) and the other one in Bangun Bandar (Indonesia). On average, bunch yield (183 kg/palm/year) and oil yield (5.34 t/ha) were close to those of the control. The best 5 hybrids represented 104-112% of the control all traits put together. In addition, Angolan origin has transmitted tolerance to Fusarium to its progenies (Fusarium index = 80-90). [(Deli &times; Angola)&rsquo;s LM 5448 T] &times; La M&eacute; hybrids yielded 241.4 kg/palm/year of bunch and 7.30 t/ha of palm oil. Their mean height was comparable to that of the control and the Fusarium index low (82). Therefore, LM 5448 T was selected for further crop improvements. The modalities of its use were proposed.

36 Effect of Blending and Tuning Relationship Matrices in Single-step Genomic BLUP

Single-step GBLUP (ssGBLUP) relies on the combination of genomic (G) and pedigree relationships for all (A) and genotyped animals (A22). The procedure implemented in the BLUPF90 software suite first involves combining a small percentage of A22 into G (blending) to avoid singularity problems, then an adjustment to account for the fact the genetic base in G and A22 is different (tuning). However, blending before tuning may not reflect the actual difference between pedigree and genomic base because the blended matrix already contains a portion of A22. The objective of this study was to evaluate the impact of tuning before blending on predictivity, bias, and inflation of GEBV, indirect predictions (IP), and SNP effects from ssGBLUP using American Angus and US Holstein data. We used four different scenarios to obtain genomic predictions: BlendFirst_TunedG2, TuneFirst_TunedG2, BlendFirst_TunedG4, and TuneFirst_TunedG4. TunedG2 adjusts mean diagonals and off-diagonals of G to be similar to the ones in A22, whereas TunedG4 adjusts based on the fixation index. Over 6 million growth records were available for Angus and 5.9 million udder depth records for Holsteins. Genomic information was available on 51,478 Angus and 105,116 Holstein animals. Predictivity and reliability were obtained for 19,056 and 1,711 validation Angus and Holsteins, respectively. We observed the same predictivity and reliability for GEBV or IP in all four scenarios, ranging from 0.47 to 0.60 for Angus and was 0.67 for Holsteins. Slightly less bias was observed when tuning was done before blending. Correlation of SNP effects between scenarios was &gt; 0.99. Refined tuning before blending had no impact on GEBV and marginally reduced the bias. This option will be implemented in the BLUPF90 software suite.

Genomic Selection in Sugarcane: Current Status and Future Prospects

Sugarcane is a C4 and agro-industry-based crop with a high potential for biomass production. It serves as raw material for the production of sugar, ethanol, and electricity. Modern sugarcane varieties are derived from the interspecific and intergeneric hybridization between Saccharum officinarum, Saccharum spontaneum, and other wild relatives. Sugarcane breeding programmes are broadly categorized into germplasm collection and characterization, pre-breeding and genetic base-broadening, and varietal development programmes. The varietal identification through the classic breeding programme requires a minimum of 12–14 years. The precise phenotyping in sugarcane is extremely tedious due to the high propensity of lodging and suckering owing to the influence of environmental factors and crop management practices. This kind of phenotyping requires data from both plant crop and ratoon experiments conducted over locations and seasons. In this review, we explored the feasibility of genomic selection schemes for various breeding programmes in sugarcane. The genetic diversity analysis using genome-wide markers helps in the formation of core set germplasm representing the total genomic diversity present in the Saccharum gene bank. The genome-wide association studies and genomic prediction in the Saccharum gene bank are helpful to identify the complete genomic resources for cane yield, commercial cane sugar, tolerances to biotic and abiotic stresses, and other agronomic traits. The implementation of genomic selection in pre-breeding, genetic base-broadening programmes assist in precise introgression of specific genes and recurrent selection schemes enhance the higher frequency of favorable alleles in the population with a considerable reduction in breeding cycles and population size. The integration of environmental covariates and genomic prediction in multi-environment trials assists in the prediction of varietal performance for different agro-climatic zones. This review also directed its focus on enhancing the genetic gain over time, cost, and resource allocation at various stages of breeding programmes.

Strategic Identification of New Genetic Diversity to Expand Lentil (Lens culinaris Medik.) Production (Using Nepal as an Example)

Although lentil has a long history of cultivation, cultivars rely on a narrow genetic base, indicating room for broadening the diversity. Two field experiments were conducted at Bardiya, Nepal, during winter 2016 and 2017, with 324 diverse lentil genotypes obtained from genebanks and breeding programs around the world. Phenological traits related to adaptation, particularly days to flower, were assessed. A photothermal model was used to predict days to flower in new environments to identify genotypes that may be suitable for additional growing regions in Nepal, allowing for the expansion of the production area. Many putatively adapted genotypes were identified for terai, mid-hill, and high-hill growing regions. The list includes large-seeded or yellow cotyledon lines, representing new market classes of lentils for Nepal.