Showing papers by "International Potato Center published in 2015"

The BioMart community portal: an innovative alternative to large, centralized data repositories

Abstract: The BioMart Community Portal (www.biomart.org) is a community-driven effort to provide a unified interface to biomedical databases that are distributed worldwide. The portal provides access to numerous database projects supported by 30 scientific organizations. It includes over 800 different biological datasets spanning genomics, proteomics, model organisms, cancer data, ontology information and more. All resources available through the portal are independently administered and funded by their host organizations. The BioMart data federation technology provides a unified interface to all the available data. The latest version of the portal comes with many new databases that have been created by our ever-growing community. It also comes with better support and extensibility for data analysis and visualization tools. A new addition to our toolbox, the enrichment analysis tool is now accessible through graphical and web service interface. The BioMart community portal averages over one million requests per day. Building on this level of service and the wealth of information that has become available, the BioMart Community Portal has introduced a new, more scalable and cheaper alternative to the large data stores maintained by specialized organizations.

The Top 10 oomycete pathogens in molecular plant pathology

Abstract: Oomycetes form a deep lineage of eukaryotic organisms that includes a large number of plant pathogens which threaten natural and managed ecosystems. We undertook a survey to query the community for their ranking of plant-pathogenic oomycete species based on scientific and economic importance. In total, we received 263 votes from 62 scientists in 15 countries for a total of 33 species. The Top 10 species and their ranking are: (1) Phytophthora infestans; (2, tied) Hyaloperonospora arabidopsidis; (2, tied) Phytophthora ramorum; (4) Phytophthora sojae; (5) Phytophthora capsici; (6) Plasmopara viticola; (7) Phytophthora cinnamomi; (8, tied) Phytophthora parasitica; (8, tied) Pythium ultimum; and (10) Albugo candida. This article provides an introduction to these 10 taxa and a snapshot of current research. We hope that the list will serve as a benchmark for future trends in oomycete research.

The genome of cultivated sweet potato contains Agrobacterium T-DNAs with expressed genes: An example of a naturally transgenic food crop

Abstract: Agrobacterium rhizogenes and Agrobacterium tumefaciens are plant pathogenic bacteria capable of transferring DNA fragments [transfer DNA (T-DNA)] bearing functional genes into the host plant genome. This naturally occurring mechanism has been adapted by plant biotechnologists to develop genetically modified crops that today are grown on more than 10% of the world’s arable land, although their use can result in considerable controversy. While assembling small interfering RNAs, or siRNAs, of sweet potato plants for metagenomic analysis, sequences homologous to T-DNA sequences from Agrobacterium spp. were discovered. Simple and quantitative PCR, Southern blotting, genome walking, and bacterial artificial chromosome library screening and sequencing unambiguously demonstrated that two different T-DNA regions (IbT-DNA1 and IbT-DNA2) are present in the cultivated sweet potato (Ipomoea batatas [L.] Lam.) genome and that these foreign genes are expressed at detectable levels in different tissues of the sweet potato plant. IbT-DNA1 was found to contain four open reading frames (ORFs) homologous to the tryptophan-2-monooxygenase (iaaM), indole-3-acetamide hydrolase (iaaH), C-protein (C-prot), and agrocinopine synthase (Acs) genes of Agrobacterium spp. IbT-DNA1 was detected in all 291 cultigens examined, but not in close wild relatives. IbT-DNA2 contained at least five ORFs with significant homology to the ORF14, ORF17n, rooting locus (Rol)B/RolC, ORF13, and ORF18/ORF17n genes of A. rhizogenes. IbT-DNA2 was detected in 45 of 217 genotypes that included both cultivated and wild species. Our finding, that sweet potato is naturally transgenic while being a widely and traditionally consumed food crop, could affect the current consumer distrust of the safety of transgenic food crops.

Agricolae - Ten years of an open source statistical tool for experiments in breeding, agriculture and biology

Abstract: Plant breeders and educators working with the International Potato Center (CIP) needed freely available statistical tools. In response, we created first a set of scripts for specific tasks using the open source statistical software R. Based on this we eventually compiled the R package agricolae as it covered a niche. Here we describe for the first time its main functions in the form of an article. We also review its reception using download statistics, citation data, and feedback from a user survey. We highlight usage in our extended network of collaborators. The package has found applications beyond agriculture in fields like aquaculture, ecology, biodiversity, conservation biology and cancer research. In summary, the package agricolae is a well established statistical toolbox based on R with a broad range of applications in design and analyses of experiments also in the wider biological community .

Ex Situ Conservation Priorities for the Wild Relatives of Potato (Solanum L. Section Petota)

Abstract: Crop wild relatives have a long history of use in potato breeding, particularly for pest and disease resistance, and are expected to be increasingly used in the search for tolerance to biotic and abiotic stresses. Their current and future use in crop improvement depends on their availability in ex situ germplasm collections. As these plants are impacted in the wild by habitat destruction and climate change, actions to ensure their conservation ex situ become ever more urgent. We analyzed the state of ex situ conservation of 73 of the closest wild relatives of potato (Solanum section Petota) with the aim of establishing priorities for further collecting to fill important gaps in germplasm collections. A total of 32 species (43.8%), were assigned high priority for further collecting due to severe gaps in their ex situ collections. Such gaps are most pronounced in the geographic center of diversity of the wild relatives in Peru. A total of 20 and 18 species were assessed as medium and low priority for further collecting, respectively, with only three species determined to be sufficiently represented currently. Priorities for further collecting include: (i) species completely lacking representation in germplasm collections; (ii) other high priority taxa, with geographic emphasis on the center of species diversity; (iii) medium priority species. Such collecting efforts combined with further emphasis on improving ex situ conservation technologies and methods, performing genotypic and phenotypic characterization of wild relative diversity, monitoring wild populations in situ, and making conserved wild relatives and their associated data accessible to the global research community, represent key steps in ensuring the long-term availability of the wild genetic resources of this important crop.

Distributions, ex situ conservation priorities, and genetic resource potential of crop wild relatives of sweetpotato [Ipomoea batatas (L.) Lam., I. series Batatas]

Abstract: Crop wild relatives of sweetpotato [Ipomoea batatas (L) Lam, I series Batatas] have the potential to contribute to breeding objectives for this important root crop Uncertainty in regard to species boundaries and their phylogenetic relationships, the limited availability of germplasm with which to perform crosses, and the difficulty of introgression of genes from wild species has constrained their utilization Here, we compile geographic occurrence data on relevant sweetpotato wild relatives and produce potential distribution models for the species We then assess the comprehensiveness of ex situ germplasm collections, contextualize these results with research and breeding priorities, and use ecogeographic information to identify species with the potential to contribute desirable agronomic traits The fourteen species that are considered the closest wild relatives of sweetpotato generally occur from the central United States to Argentina, with richness concentrated in Mesoamerica and in the extreme Southeastern United States Currently designated species differ among themselves and in comparison to the crop in their adaptations to temperature, precipitation, and edaphic characteristics and most species also show considerable intraspecific variation With 79% of species identified as high priority for further collecting, we find that these crop genetic resources are highly under-represented in ex situ conservation systems and thus their availability to breeders and researchers is inadequate We prioritize taxa and specific geographic locations for further collecting in order to improve the completeness of germplasm collections In concert with enhanced conservation of sweetpotato wild relatives, further taxonomic research, characterization and evaluation of germplasm, and improving the techniques to overcome barriers to introgression with wild species are needed in order to mobilize these genetic resources for crop breeding

A Cross-Sectional Study of Pesticide Use and Knowledge of Smallholder Potato Farmers in Uganda

Abstract: In response to increased pest and disease problems, potato farmers use pesticides, which could raise environmental and health concerns. This study sought to promote proper and safe pesticide-handling practices by providing data needed to guide pesticide regulation policy and training for extension staff and farmers. A household survey was conducted in three major potato-growing agroecological zones of Uganda. Two hundred and four potato farmers were interviewed about the type and source of pesticides they use in potato cultivation, the frequency of applications, the use of protective clothing, and cases of pesticide poisoning. The types of pesticides used in potato were fungicides (72%), insecticides (62%), and herbicides (3%). Overall, use of personal protective equipment was low, that is, gumboots (73%), gloves (7%), face masks (16%), and long sleeve shirts (42%). Forty-three percent of farmers who applied pesticides reported having experienced skin itching, 25% skin burning sensation, 43% coughing, 60% a runny nose, 27% teary eyes, and 42% dizziness. An IPM approach involving only moderately to slightly hazardous pesticides when pest and disease incidence has reached economic injury levels and by considering all safety measures during application and storage would be environmentally recommendable and result in reduced health risks.

Degeneration in sweetpotato due to viruses, virus‐cleaned planting material and reversion: a review

Abstract: This review examines viral degeneration in sweetpotato in different regions of the World, particularly that caused by Sweet potato chlorotic stunt virus (SPCSV) and Sweet potato feathery mottle virus (SPFMV), comparing impacts on yield in single and complex infections of all the major viruses affecting the crop. How cultivars are generated and virus resistance are also covered, especially for Africa. The synergistic (SPCSV + SPFMV) sweet potato virus disease (SPVD) is amongst the most dramatic diseases of sweetpotato but its overall yield impacts may not be as high as is generally assumed. It is constrained by resistance, roguing and selection of symptomless planting material. Instead, the cumulative impact of individual and combinations of symptomless viruses may be globally greater. These include sweepoviruses and various potyviruses, of which the commonest is SPFMV. A number of aspects of virus-cleaned planting stocks are identified, including reinfection rates, that need investigating before their use is considered as sustainable in developing countries. Popular East African cultivars appear to sustain their long-term survival by reverting from symptomless infection. The likely biochemistry of this is discussed, and parallels are drawn with other crops. It is concluded that breeding for this attribute will be the best strategy for achieving long-term control of most sweetpotato viruses.

Deep Sequencing of Virus-Derived Small Interfering RNAs and RNA from Viral Particles Shows Highly Similar Mutational Landscapes of a Plant Virus Population

Abstract: RNA viruses exist within a host as a population of mutant sequences, often referred to as quasispecies. Within a host, sequences of RNA viruses constitute several distinct but interconnected pools, such as RNA packed in viral particles, double-stranded RNA, and virus-derived small interfering RNAs. We aimed to test if the same representation of within-host viral population structure could be obtained by sequencing different viral sequence pools. Using ultradeep Illumina sequencing, the diversity of two coexisting Potato virus Y sequence pools present within a plant was investigated: RNA isolated from viral particles and virus-derived small interfering RNAs (the derivatives of a plant RNA silencing mechanism). The mutational landscape of the within-host virus population was highly similar between both pools, with no notable hotspots across the viral genome. Notably, all of the single-nucleotide polymorphisms with a frequency of higher than 1.6% were found in both pools. Some unique single-nucleotide polymorphisms (SNPs) with very low frequencies were found in each of the pools, with more of them occurring in the small RNA (sRNA) pool, possibly arising through genetic drift in localized virus populations within a plant and the errors introduced during the amplification of silencing signal. Sequencing of the viral particle pool enhanced the efficiency of consensus viral genome sequence reconstruction. Nonhomologous recombinations were commonly detected in the viral particle pool, with a hot spot in the 3′ untranslated and coat protein regions of the genome. We stress that they present an important but often overlooked aspect of virus population diversity. IMPORTANCE This study is the most comprehensive whole-genome characterization of a within-plant virus population to date and the first study comparing diversity of different pools of viral sequences within a host. We show that both virus-derived small RNAs and RNA from viral particles could be used for diversity assessment of within-plant virus population, since they show a highly congruent portrayal of the virus mutational landscape within a plant. The study is an important baseline for future studies of virus population dynamics, for example, during the adaptation to a new host. The comparison of the two virus sequence enrichment techniques, sequencing of virus-derived small interfering RNAs and RNA from purified viral particles, shows the strength of the latter for the detection of recombinant viral genomes and reconstruction of complete consensus viral genome sequence.

Identification of mVOCs from Andean Rhizobacteria and Field Evaluation of Bacterial and Mycorrhizal Inoculants on Growth of Potato in its Center of Origin

Abstract: Food security (a pressing issue for all nations) faces a threat due to population growth, land availability for growing crops, a changing climate (leading to increases in both abiotic and biotic stresses), heightened consumer awareness of the risks related to the use of agrichemicals, and also the reliance on depleting fossil fuel reserves for their production. Legislative changes in Europe mean that fewer agrichemicals will be available in the future for the control of crop pests and pathogens. The need for the implementation of a more sustainable agricultural system globally, incorporating an integrated approach to disease management, has never been more urgent. To that end, the Valorizing Andean Microbial Diversity (VALORAM) project (http://valoram.ucc.ie), funded under FP7, examined the role of microbial communities in crop production and protection to improve the sustainability, food security, environmental protection, and productivity for rural Andean farmers. During this work, microbial volatile organic compounds (mVOCs) of 27 rhizobacterial isolates were identified using gas chromatography/mass spectrometry (GC/MS), and their antifungal activity against Rhizoctonia solani was determined in vitro and compared to the activity of a selection of pure volatile compounds. Five of these isolates, Pseudomonas palleroniana R43631, Bacillus sp. R47065, R47131, Paenibacillus sp. B3a R49541, and Bacillus simplex M3-4 R49538 trialled in the field in their respective countries of origin, i.e., Bolivia, Peru, and Ecuador, showed significant increase in the yield of potato. The strategy followed in the VALORAM project may offer a template for the future isolation and determination of putative biocontrol and plant growth-promoting agents, useful as part of a low-input integrated pest management system.

The effect of women’s home gardens on vegetable production and consumption in Bangladesh

Abstract: Home-based vegetable production has been recognized as a nutrition- and gender-sensitive intervention that has the potential to improve nutrition in developing countries, yet evidence is lacking. This study tested whether women’s training in improved home gardens (including nutrition as well as technical aspects) contributes to increased production and consumption of vegetables, which are necessary preconditions for improving nutrition. The study used data from 582 poor rural women in two districts of Bangladesh (479 control and 103 intervention). Training increased the per capita production of mostly leafy vegetables from 20 to 37 kg per year (+86 %). Diversity of production and frequency of harvesting also increased. In terms of nutrient yields, the improved gardens increased the supply of plant proteins by 171 %, iron by 284 %, vitamin A by 189 % and vitamin C by 290 %. Training had a significant impact on the diversity of vegetables consumed, based on 30-day food frequency data and also increased the relative involvement of women in the home garden for all gardening tasks. These results indicate that women’s home gardens are an effective intervention in Bangladesh for increasing the supply and consumption of a diverse range of vegetables in poor rural households, thereby contributing to nutrition security.

Trait associations in common bean genotypes grown under drought stress and field infestation by BSM bean fly

Abstract: Understanding functional relations among plant traits and their modulation by growing conditions is imperative in designing selection strategies for breeding programs. This study assessed trait relationships among 196 common bean genotypes exposed to stresses for drought and field infestation of bean fly or bean stem maggot (BSM). The study was carried out at two locations and data was analyzed with linear correlation, path coefficient and genotype × trait biplot analyses. Multiple trait data related to mechanisms of drought and bean fly tolerance were collected on 196 genotypes grown under i) water deficit at mid-pod fill, or ii) unprotected against bean fly; iii) irrigated, well watered conditions, or iv) bean fly protection with chemicals. Seed yield exhibited positive and significant correlations with leaf chlorophyll content, vertical root pulling resistance, pod harvest index, pods per plant and seeds per pod at both phenotypic and genotypic levels under stress and non-stress conditions. Genotypic correlations of traits with seed yield were greater than their respective phenotypic correlations across environments indicating the greater contribution of genotypic factors to the trait correlation. Pods per plant and seeds per pod had high positive direct effects on seed yield both under stress and non-stress whereas pods per plant had the highest indirect effect on seed yield through pod harvest index under stress. In general, our results suggest that vertical root pulling resistance and pod harvest index are important selection objectives for improving seed yield in common beans under non-stress and stress conditions, and particularly useful for drought and BSM tolerance evaluation.

Construction of a High-Density Simple Sequence Repeat Consensus Genetic Map for Pear (Pyrus spp.)

Abstract: As an important fruit crop that is widely grown commercially in temperate regions of the world, pear (Pyrus) is a target for pursuing efficient breeding strategies. Construction of a reliable and dense genetic linkage map is critical for undertaking marker-assisted breeding. In this study, a population of 56 F1 seedlings of ‘Bayuehong’ × ‘Dangshansuli’ was used to construct a high-density simple sequence repeat (SSR)-based genetic linkage map. A total of 1,756 SSR markers, including 1,341 newly designed SSRs based on whole-genome sequencing of an Asiatic pear along with 415 previously reported SSRs, were first evaluated for polymorphism. Based on 894 SSRs demonstrating polymorphism, a consensus genetic map consisting of 734 loci distributed along all 17 linkage groups (LG) was constructed, with a total length of 1,661.4 cM and with an average marker interval of 2.26 cM. Comparisons among different maps of pear and apple were then made based on positions of previously mapped SSR markers on the consensus map. As a result, homologous linkage groups LG3 and LG11, LG5 and LG10, LG9 and LG17, LG13 and LG16, LG8 and LG15 have been identified. This high-density SSR map along with a set of SSR markers covering the whole genome of pear will greatly facilitate integration of independent maps, aid in pursuing comparative genome studies, and in evaluation of different germplasm in future genetic and breeding studies.

In Vitro Bioaccessibility and Bioavailability of Iron from Potatoes with Varying Vitamin C, Carotenoid, and Phenolic Concentrations

Abstract: The bioaccessibility and bioavailability of iron from 12 Andean potato clones were estimated using an in vitro gastrointestinal digestion procedure and the Caco-2 cell line as a model of human intestine, with ferritin formation as a marker of iron absorption. We first showed that 63.7% (for the genotype CIP_311422.016) to 79.0% (for the genotype CIP_311575.003) of the iron is released from the potato tuber matrix during in vitro gastrointestinal digestion and is therefore available at the intestinal level. On average, 32 and 24.5% of the hydrophilic bioactive components, vitamin C and chlorogenic acid, respectively, were also bioaccessible from boiled tubers. Intestinal absorption of intrinsic iron from potato tubers could not be detected using our in vitro Caco-2 cell model. When an extrinsic source of iron (20 μM FeCl3 and 1 mM ascorbic acid) was added to the digestion mixture, iron absorption varied from 1.8 to 8% for the genotypes CIP_311422.016 and CIP_311624.021, respectively, as compared to the ref...

Synergistic interactions of begomoviruses with Sweet potato chlorotic stunt virus (genus Crinivirus) in sweet potato (Ipomoea batatas L.)

Abstract: Three hundred and ninety-four sweet potato accessions from Latin America and East Africa were screened by polymerase chain reaction (PCR) for the presence of begomoviruses, and 46 were found to be positive. All were symptomless in sweet potato and generated leaf curling and/or chlorosis in Ipomoea setosa. The five most divergent isolates, based on complete genome sequences, were used to study interactions with Sweet potato chlorotic stunt virus (SPCSV), known to cause synergistic diseases with other viruses. Co-infections led to increased titres of begomoviruses and decreased titres of SPCSV in all cases, although the extent of the changes varied notably between begomovirus isolates. Symptoms of leaf curling only developed temporarily in combination with isolate StV1 and coincided with the presence of the highest begomovirus concentrations in the plant. Small interfering RNA (siRNA) sequence analysis revealed that co-infection of SPCSV with isolate StV1 led to relatively increased siRNA targeting of the central part of the SPCSV genome and a reduction in targeting of the genomic ends, but no changes to the targeting of StV1 relative to single infection of either virus. These changes were not observed in the interaction between SPCSV and the RNA virus Sweet potato feathery mottle virus (genus Potyvirus), implying specific effects of begomoviruses on RNA silencing of SPCSV in dually infected plants. Infection in RNase3-expressing transgenic plants showed that this protein was sufficient to mediate this synergistic interaction with DNA viruses, similar to RNA viruses, but exposed distinct effects on RNA silencing when RNase3 was expressed from its native virus, or constitutively from a transgene, despite a similar pathogenic outcome.

Contribution of Different Organs to Grain Filling in Durum Wheat under Mediterranean Conditions I. Contribution of Post‐Anthesis Photosynthesis and Remobilization

Abstract: Under Mediterranean conditions, drought affects cereals production principally through a limitation of grain filling. In this study, the respective role of post-anthesis photosynthesis and carbon remobilization and the contribution of flag leaf, stem, chaff and awns to grain filling were evaluated under Mediterranean conditions in durum wheat (Triticum turgidum var. durum) cultivars. For the purpose, we examined the effects of shading and excision of different parts of the plant and compared carbon isotope discrimination (Δ) in dry matter of flag leaf, stem, chaff, awns and grain at maturity and in sap of stem, flag leaf, chaff and awns, this last measurement providing information on photosynthesis during a short period preceding sampling. Source–sink manipulations and isotopic imprints of different organs on final isotope composition of the grain confirmed the high contribution of both carbons assimilated by ears and remobilized from stems to grain filling, and the relatively low contribution of leaves to grain filling. Grain Δ was highly and significantly associated with grain yield across treatments, suggesting the utilization of this trait as an indicator of source–sink manipulations effects on grain yield. Chaff and awns Δ were better correlated with grain Δ than stem and leaf Δ, indicating that chaff were more involved in grain filling than other organs. Moreover, in chaff, sap Δ was highly significantly correlated with dry matter Δ. These results suggest the use of Δ for a rapid and non-destructive estimation of the variation in the contribution of different organs to grain filling.

Climate change adaptation in agriculture: Ex ante analysis of promising and alternative crop technologies using DSSAT and IMPACT

Abstract: Achieving and maintaining global food security is challenged by changes in population, income, and climate, among other drivers. Assessing these challenges and possible solutions over the coming decades requires a rigorous multidisciplinary approach. To answer this challenge, the International Food Policy Research Institute (IFPRI) has developed a system of linked simulation models of global agriculture to do long-run scenario analysis of the effects of climate change and various adaptation strategies. This system includes the core International Model for Policy Analysis of Agricultural Commodities and Trade (IMPACT), which is linked to water models (global hydrology, water basin management, and water stress on crops) and crop simulation models.

Transcriptome analysis and systemic RNAi response in the African sweetpotato weevil (Cylas puncticollis, Coleoptera, Brentidae

Abstract: The African sweetpotato weevil (SPW) Cylas puncticollis Boheman is one of the most important constraints of sweetpotato production in Sub-Saharan Africa and yet is largely an uncharacterized insect pest. Here, we report on the transcriptome analysis of SPW generated using an Illumina platform. More than 213 million sequencing reads were obtained and assembled into 89,599 contigs. This assembly was followed by a gene ontology annotation. Subsequently, a transcriptome search showed that the necessary RNAi components relevant to the three major RNAi pathways, were found to be expressed in SPW. To address the functionality of the RNAi mechanism in this species, dsRNA was injected into second instar larvae targeting laccase2, a gene which encodes an enzyme involved in the sclerotization of insect exoskeleton. The body of treated insects showed inhibition of sclerotization, leading eventually to death. Quantitative Real Time PCR (qPCR) confirmed this phenotype to be the result of gene silencing. Together, our results provide valuable sequence data on this important insect pest and demonstrate that a functional RNAi pathway with a strong and systemic effect is present in SPW and can further be explored as a new strategy for controlling this important pest.

Sowing seeds of empowerment: effect of women’s home garden training in Bangladesh

Abstract: There is a lack of scientific evidence that home gardens contribute to women empowerment, which eventually leads to greater gender equality, although it is generally assumed that they do. Using data from poor rural households in Bangladesh, this paper analyzes if and how women’s training in home gardening and nutrition empowers women. The study used a mixed methods approach, combining statistical analysis of quantitative data for 456 women with content analysis of qualitative data from in-depth interviews. The results show that home garden training is popular and widely accepted by both men and women largely because it does not contest existing socially constructed gender roles. Nevertheless, we find clear signs of increased control by women over food supplies and income, and gains in women’s self-confidence and role in the community—as husbands and outsiders begin to recognize their agricultural skills. However, such improvements have been gradual rather than radical. Many men and women appreciated the new opportunity to work together on something of common interest that advanced their quality of life. The evidence presented shows gradual but clear signs of women empowerment as a result of training in home gardens and nutrition.

Improved cryopreservation method for the long-term conservation of the world potato germplasm collection

Abstract: The effect of cold and sucrose pretreatment for increasing tolerance to cryopreservation was evaluated with eight diverse genotypes, six cultivars belonging to the cultivated species, Solanum tuberosum spp., S. tuberosum subsp. andigena, S. x juzepczukii and S. x ajanhuiri, and two genotypes from the wild species, S. commersonii. In vitro plantlets were cultured at either 6 or 22 C in media supplemented with either 0.07 or 0.3 M sucrose prior to droplet PVS2 cryopreservation. The sucrose pretreatment appeared to have no positive effect on post-cryo survival. The cold-hardening pretreatment increased significantly post-cryo recovery in drought and frost tolerant cultivars. When 755 accessions, representing 10 taxa, were cryo- preserved after cold-hardening, 96 % responded with at least one shoot recovering and 63 % showed a high recovery rate (40-100 %). Therefore this method is recommended for the long term conservation of diverse accessions of potato germplasm.

Multiple QTLs Linked to Agro-Morphological and Physiological Traits Related to Drought Tolerance in Potato

Abstract: Dissection of the genetic architecture of adaptation and abiotic stress-related traits is highly desirable for developing drought-tolerant potatoes and enhancing the resilience of existing cultivars, particularly as agricultural production in rain-fed areas may be reduced by up to 50 % by 2020. The “DMDD” potato progeny was developed at International Potato Center (CIP) by crossing the sequenced double monoploid line DM and a diploid cultivar of the Solanum tuberosum diploid Andigenum Goniocalyx group. Recently, a high-density integrated genetic map based on single nucleotide polymorphism (SNP), diversity array technology (DArT), simple sequence repeats (SSRs), and amplified fragment length polymorphism (AFLP) markers was also made available for this population. Two trials were conducted, in greenhouse and field, for drought tolerance with two treatments each, well-watered and terminal drought, in which watering was suspended 60 days after planting. The DMDD population was evaluated for agro-morphological and physiological traits before and after initiation of stress, at multiple time points. Two dense parental genetic maps were constructed using published genotypic data, and quantitative trait locus (QTL) analysis identified 45 genomic regions associated with nine traits in well-watered and terminal drought treatments and 26 potentially associated with drought stress. In this study, the strong influence of environmental factors besides water shortage on the expression of traits and QTLs reflects the multigenic control of traits related to drought tolerance. This is the first study to our knowledge in potato identifying QTLs for drought-related traits in field and greenhouse trials, giving new insights into genetic architecture of drought-related traits. Many of the QTLs identified have the potential to be used in potato breeding programs for enhanced drought tolerance.

Potato Variety Diversity, Determinants and Implications for Potato Breeding Strategy in Ethiopia

Abstract: Understanding what farmers need in potato varieties and assessing available genetic resources at the farmer and district levels is important for the conservation and improvement of potato in Ethiopia. A survey was conducted in six major potato growing districts representing different agro-ecologies, cropping systems, market outlets, and levels of new variety adoption. Seventy to ninety percent of the farmers surveyed reported growing two or more potato varieties; some farmers reported growing up to five. The greatest diversity at the district level (up to 10 potato varieties) was recorded at Gumer & Geta where there is better access to new varieties while the lowest diversity was reported in districts with low access to new cultivars. The distribution of varieties differed among agro-ecologies as did the traits that farmers were most concerned with, such as drought tolerance, late blight resistance, yield potential, marketability, food value, storage quality, adaptation to low soil fertility, time to maturity and suitability for multiple harvesting. Farmers’ decision-making processes and external factors that influence potato variety diversity were also documented. The registration of predominant local varieties and use of these local varieties as a starting point for the development of improved varieties are some of the recommendations for future potato breeding in Ethiopia. Moreover, it is necessary to consider variations in agro-ecologies, cropping systems and market outlets in the process of developing varieties suitable for farmers’ and consumers’ real needs.

Cytoplasmic diversity in potato breeding: case study from the International Potato Center

Abstract: We analyzed the cytoplasmic diversity of CIP potato breeding germplasm. Cytoplasm types were assigned to 978 genotypes consisting of 265 foreign accessions used as input germplasm, 642 breeding lines developed by CIP, and 71 varieties released from CIP material. We found T (45 %), D (38 %), and W (11 %) to be the most frequent cytoplasm types in CIP breeding germplasm. Comparing the initial input germplasm to CIP breeding lines, the frequency of T-type cytoplasm decreased from 64 to 38 %, while those of D- and W-type cytoplasms increased from 26 to 41 % and from 6 to 14 %, respectively. We conclude that the CIP breeding program, as many others worldwide, has experienced a genetic bottleneck in terms of cytoplasmic diversity due to the unintended and continuous use of cytoplasmic-based male-sterile maternal lineages derived from Solanum demissum and S. stoloniferum in parental line and variety development. Nonetheless, the finding of male-fertile T-type breeding lines must have alleviated the problem to a certain extent, thus enabling CIP breeding progress.

Integrated assessment of sustainable agricultural practices to enhance climate resilience in Morogoro, Tanzania

Abstract: Climate change is an unprecedented global threat to fundamental life-supporting systems and people’s livelihoods and is expected to aggravate development challenges. Subsistence-oriented smallholder farmers of developing regions, such as those in sub-Saharan Africa, are highly vulnerable to these changes given their lower adaptive capacity. In this context, building a climate-resilient agricultural society is an essential requirement to protect livelihoods. Hence, there is a need for spreading the climate-resilient sustainable agricultural (CRSA) practices by replicating the proven ones to larger areas (scaling-up). Fostering widespread adoption of such practices needs consideration of their social, ecological, economic, and institutional appropriateness in target areas. This article reports the application of a tool “ScalA” that generates information on a multitude of aspects and assesses the local suitability of CRSA practices among sub-Saharan smallholders. It also briefly presents other state-of-the-art tools that can be used for similar purposes. In the first case study, the tool is used to assess appropriateness of agroforestry, biochar application, and rainwater harvesting in Fulwe village of Morogoro, Tanzania, for enhancing resilience capacity. In another case study, the potential of fertilizer management is assessed for two different villages, i.e., Fulwe and Mlali. Analytically, appropriateness of interventions is assessed by the deviation of the actual factor constellation of the scaling-up process with an optimal constellation that will foster the wider adoption of the given practice.