Background Phosphorus (P) fixation on aluminum (Al) and iron (Fe) oxides in soil clays restricts P availability for crops cultivated on highly weathered tropical soils, which are common in developing countries. Hence, P deficiency becomes a major obstacle for global food security. We used multi-trait quantitative trait loci (QTL) mapping to study the genetic architecture of P efficiency and to explore the importance of root traits on sorghum grain yield on a tropical low-P soil. Results P acquisition efficiency was the most important component of P efficiency, and both traits were highly correlated with grain yield under low P availability. Root surface area was positively associated with grain yield. The guinea parent, SC283, contributed 58% of all favorable alleles detected by single-trait mapping. Multi-trait mapping detected 14 grain yield and/or root morphology QTLs. Tightly linked or pleiotropic QTL underlying the surface area of fine roots (1–2 mm in diameter) and grain yield were detected at positions 1–7 megabase pairs (Mb) and 71 Mb on chromosome 3, respectively, and a root diameter/grain yield QTL was detected at 7 Mb on chromosome 7. All these QTLs were near sorghum homologs of the rice serine/threonine kinase, OsPSTOL1 . The SbPSTOL1 genes on chromosome 3, Sb03g006765 at 7 Mb and Sb03g031690 at 60 Mb were more highly expressed in SC283, which donated the favorable alleles at all QTLs found nearby SbPSTOL1 genes. The Al tolerance gene, SbMATE , may also influence a grain yield QTL on chromosome 3. Another PSTOL1 -like gene , Sb07g02840 , appears to enhance grain yield via small increases in root diameter. Co-localization analyses suggested a role for other genes, such as a sorghum homolog of the Arabidopsis ubiquitin-conjugating E2 enzyme , phosphate 2 ( PHO2 ), on grain yield advantage conferred by the elite parent, BR007 allele. Conclusions Genetic determinants conferring higher root surface area and slight increases in fine root diameter may favor P uptake, thereby enhancing grain yield under low-P availability in the soil. Molecular markers for SbPSTOL1 genes and for QTL increasing grain yield by non-root morphology-based mechanisms hold promise in breeding strategies aimed at developing sorghum cultivars adapted to low-P soils. Electronic supplementary material The online version of this article (10.1186/s12870-019-1689-y) contains supplementary material, which is available to authorized users.

Angular leaf spot, caused by Phaeoisariopsis griseola (Sacc.) Ferraris, is one of the major diseases affecting the common bean (Phaseolus vulgaris L.) in Brazil which can lead to severe yield losses. Previous studies demonstrated that cultivar MAR‐2 was resistant to race 63.39 of P. griseola. The objective of this work was to characterize the resistance to angular leaf spot in MAR‐2 in an F2 population derived from the cross with Ruda (susceptible parent), and also to identify random amplified polymorphic DNA (RAPD) markers linked to the resistance gene. Cultivar MAR‐2 was crossed with Ruda, a “carioca‐type” cultivar susceptible to angular leaf spot, to determine the inheritance of resistance. The results demonstrated that a single dominant gene present in MAR‐2 was responsible for the resistance to P. griseola, race 63.39. Resistant and susceptible DNA bulks from the F2 population were constructed to identify RAPD markers linked to the resistance gene. Amplification with primer OPE‐04 generated a 500‐bp fragment which distinguished the resistant from the susceptible bulk populations. Co‐segregation analysis of the entire population demonstrated that the RAPD marker was linked to the resistance gene at a distance of 5.8 Cm.

Core Ideas We comprehensively validated the use of UAS in sorghum and maize breeding programs. Temporal estimates of plant growth will allow researchers to elucidate new phenotypes. The stage of the breeding pipeline dictates the applicability of UAS platforms. The implementation of UAS is demonstrated in different crop species. Monetary and time costs should be considered before implementation of UAS. To meet future world food and fiber demands, plant breeders must increase the rate of genetic improvement of important agricultural crops. One of the biggest obstacles now facing crop scientists is a phenotyping bottleneck. To ease this burden, the emerging technology of unmanned aerial systems (UAS) presents an exciting opportunity. To assess the utility of UAS, it is important to investigate their application across multiple crop species. Terminal plant height is of great importance to maize (Zea mays L.) and sorghum [Sorghum bicolor (L.) Moench] breeders and has been hypothesized to be useful but has been logistically impractical to measure in the field. In this study, we statistically analyzed in depth the ability of UAS to estimate height in sorghum (advanced and early generation material) and maize (optimal and late material) and the application of these estimates in breeding programs. We found that UAS explain genotypic variation similarly to ground‐truth methods and that the repeatability of the methodology is high (R = 0.61–0.99), indicating effective differentiation of genotypes. Additionally, correlations between ground truth and UAS measurements were moderate to high for all materials (r = 0.4–0.9). Finally, we present a novel application for the technology in the form of high‐resolution temporal growth curves. Using these UAS‐generated growth curves, new physiological insights can be obtained and new avenues of scientific investigation are possible.

No abstract

Aluminum (Al) toxicity damages plant roots and limits crop production on acid soils, which comprise up to 50% of the world’s arable lands. A major Al tolerance locus on chromosome 3, AltSB, controls aluminum tolerance in sorghum [Sorghum bicolor (L.) Moench] via SbMATE, an Al-activated plasma membrane transporter that mediates Al exclusion from sensitive regions in the root apex. As is the case with other known Al tolerance genes, SbMATE was cloned based on studies conducted under controlled environmental conditions, in nutrient solution. Therefore, its impact on grain yield on acid soils remains undetermined. To determine the real world impact of SbMATE, multi-trait quantitative trait loci (QTL) mapping in hydroponics, and, in the field, revealed a large-effect QTL colocalized with the Al tolerance locus AltSB, where SbMATE lies, conferring a 0.6 ton ha–1 grain yield increase on acid soils. A second QTL for Al tolerance in hydroponics, where the positive allele was also donated by the Al tolerant parent, SC283, was found on chromosome 9, indicating the presence of distinct Al tolerance genes in the sorghum genome, or genes acting in the SbMATE pathway leading to Al-activated citrate release. There was no yield penalty for AltSB, consistent with the highly localized Al regulated SbMATE expression in the root tip, and Al-dependent transport activity. A female effect of 0.5 ton ha–1 independently demonstrated the effectiveness of AltSB in hybrids. Al tolerance conferred by AltSB is thus an indispensable asset for sorghum production and food security on acid soils, many of which are located in developing countries.

Inheritance of anthracnose resistance of the common bean (Phaseolus vulgaris L.) differential cultivar AB 136 to races 89, 64, and 73 (binary system designation) was studied in crosses with the susceptible differential cultivars Michelite (race 89), Mexico 222 (race 64), and Cornell 49-242 (race 73). In each cross two progenitors, the F1, F2, and backcross-derived plants were inoculated with the respective race under environmentally controlled greenhouse conditions. The results indicate that single dominant gene(s) control resistance to races 89 and 64, giving a segregation ratio of 3:1 in the F2, 1:0 in the backcrosses to AB 136, and 1:1 in the backcross to Michelite (race 89), and to Mexico 222 (race 64). For race 73, the following segregation ratios between resistant and susceptible plants were observed: 13:3 in the F2, 1:0 in the backcross to AB 136, and 1:1 in the backcross to Cornell 49-242. Such results suggest that two independent genes may determine resistance of AB 136 to race 73, one dominant (Co-6) and one recessive that is proposed to be assigned co-8. Genotypes Co-6_ or co-8 co-8 would condition resistance, whereas susceptibility would be present in genotypes co-6 co-6 Co-8_. Given the dominant nature of anthracnose resistance genes present in line AB 136 and its resistance to 25 races of Colletotrichum lindemuthianum identified in Brazil by other researchers, we included this cultivar as one of the donor parents in our molecular marker-assisted backcross breeding program, to develop common bean cultivars resistant to anthracnose and adapted to Central Brazil.

Sweet sorghum is an outstanding feedstock choice for bioethanol production, but the gap between theoretical and commercial ethanol yields must be reduced to improve economic viability. Extractable juice yield is a primary limiting factor for higher ethanol yield, but current phenotyping techniques to measure juice yield in sorghum can be laborious. Therefore, alternative approaches to measuring juice yield during selection are needed. The objectives of this study were to investigate the relationship between stalk-related traits and juice yield and to assess the ability to predict juice yield using agronomic traits and stalk properties across and within a diverse set of sorghum ideotypes (photoinsensitive, photosensitive, biomass, grain, and sweet types). Stalk weight, stalk volume, stalk diameter, and plant height had significantly strong associations with juice yield, which were consistent across different sorghum ideotypes. The direct and indirect effects of multiple predictive traits on juice yield varied greatly with the distinct sorghum subsets. However, equation modeling demonstrated that juice yield is satisfactorily predicted by jointly assessing stalk weight and stalk moisture. Moreover, alternative prediction models involving distinct combinations of agronomic and stalk-related traits had similarly good prediction accuracy. Altogether, this suggests that several prediction models can be used to accelerate phenotyping for juice yield, which will improve the selection process. Overall, the results indicate that increasing sorghum juice yield via indirect selection is possible, but the choice of prediction model depends on the ideotypes and resources available in a breeding program.

BackgroundIn bioenergy/forage sorghum, morpho-anatomical stem properties are major components affecting standability and juice yield. However, phenotyping these traits is low-throughput, and has been restricted by the lack of a high-throughput phenotyping platforms that can collect both morphological and anatomical stem properties. X-ray computed tomography (CT) offers a potential solution, but studies using this technology in plants have evaluated limited numbers of genotypes with limited throughput. Here we suggest that using a medical CT might overcome sample size limitations when higher resolution is not needed. Thus, the aim of this study was to develop a practical high-throughput phenotyping and image data processing pipeline that extracts stem morpho-anatomical traits faster, more efficiently and on a larger number of samples.ResultsA medical CT was used to image morpho-anatomical stem properties in sorghum. The platform and image analysis pipeline revealed extensive phenotypic variation for important morpho-anatomical traits in well-characterized sorghum genotypes at suitable repeatability rates. CT estimates were highly predictive of morphological traits and moderately predictive of anatomical traits. The image analysis pipeline also identified genotypes with superior morpho-anatomical traits that were consistent with ground-truth based classification in previous studies. In addition, stem cross section intensity measured by the CT was highly correlated with stem dry-weight density, and can potentially serve as a high-throughput approach to measure stem density in grass stems.ConclusionsThe use of CT on a diverse set of sorghum genotypes with a defined platform and image analysis pipeline was effective at predicting traits such as stem length, diameter, and pithiness ratio at the internode level. High-throughput phenotyping of stem traits using CT appears to be useful and feasible for use in an applied breeding program.Electronic supplementary materialThe online version of this article (10.1186/s13007-018-0326-3) contains supplementary material, which is available to authorized users.