Browsing by Author "Bua, Anton"
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Item African Cassava Whitefly, Bemisia tabaci, Resistance in African and South American Cassava Genotypes(Journal of integrative agriculture, 2012) Omongo, Christopher A.; Kawuki, Robert; Bellotti, Antony C.; Alicai, Titus; Baguma, Yona; Maruthi, M. N.; Bua, Anton; Colvin, JohnThe whitefly, Bemisia tabaci, is a major pest of cassava, particularly in Africa where it is responsible both for the transmission of plant viruses and, increasingly, for direct damage due to feeding by high populations. To date, there have been no practical solutions to combat this emerging problem, due to the inability of the subsistence farmers that grow cassava to afford expensive inputs such as insecticides. A programme of research was carried out linking institutes in Africa, the UK and South America, to identify possible resistance sources in cassava to the whitefly, Bemisia tabaci. The South American genotype MEcu 72 and several Ugandan cassava landraces including Ofumba Chai, Nabwire 1 and Mercury showed good levels of resistance to B. tabaci. Field and screen-house experiments showed that all of the improved, high-yielding cassava mosaic disease (CMD) resistant cassava genotypes assessed were highly susceptible to B. tabaci and supported high populations of all life stages. These data support the hypothesis that the continuing high populations of cassava B. tabaci in Uganda are due, in part, to the widespread adoption of CMD-resistant cassava varieties during the CMD pandemic. They also show that the whitefly, Aleurotrachelus socialis, resistance present in the South American cassava genotypes could have broader applicability in the Old World.Item The effect of cassava mosaic disease on the genetic diversity of cassava in Uganda(Euphytica, 2005) Balyejusa Kizito, Elizabeth; Bua, Anton; Fregene, Martin; Egwang, Thomas; Gullberg, Urban; Westerbergh, AnnaCassava (Manihot esculenta) is a tropical crop that is grown in Africa, Latin America and Southeast Asia. Cassava was introduced from Latin America into West and East Africa at two independent events. In Uganda a serious threat to cassava’s survival is the cassava mosaic disease (CMD). Uganda has had two notable CMD epidemics since the introduction of cassava in the 1850s causing severe losses. SSR markers were used to study the effect of CMD on the genetic diversity in five agroecologies in Uganda with high and low incidence of CMD. Surprisingly, high gene diversity was detected. Most of the diversity was found within populations, while the diversity was very small among agroecological zones and the high and low CMD incidence areas. The high genetic diversity suggests a mechanism by which diversity is maintained by the active involvement of the Ugandan farmer in continuously testing and adopting new genotypes that will serve their diverse needs. However, in spite of the high genetic diversity we found a loss of rare alleles in areas with high CMD incidence. To study the effect of the introgression history on the gene pool the genetic differentiation between East and West Africa was also studied. Genetic similarities were found between the varieties in Uganda and Tanzania in East Africa and Ghana in West Africa. Thus, there is no evidence for a differentiation of the cassava gene pool into a western and an eastern genetic lineage. However, a possible difference in the genetic constitution of the introduced cassava into East and West Africa may have been diminished by germplasm movement.Item Effects of Improved Cassava Varieties on Farmers’ Income in Northern Agro-ecological Zone, Uganda(Sustainable Agriculture Research, 2021) Akongo, Graceline O.; Otim, Godfrey A.; Turyagyenda, Laban F.; Bua, Anton; Komakech, Alfred; Obong, S.This paper examines the extent to which improved cassava varieties contribute to improvement in income of smallholder farmers in the Northern agro-ecological zone of Uganda. In order to achieve the objective, data was collected from PRELNOR supported farmers’ fields, other farmers’ fields and baseline cassava fields. Consequently, descriptive statistics, gross margin and stochastic frontier analysis were adopted during analysis. Results from the analysis revealed that higher yields per hectare were registered within PRELNOR supported farmers’ fields and yield from NAROCAS1 surpassed all the varieties (37.3 tons per hectare). Location specific results revealed that Gulu had better yields (34.5 tons per hectare) while Kitgum registered the lowest average yield (24.1 tons per hectare). Gross margin indicated that every Shilling invested in improved variety earned profit 1.3 to 1.8 times above the local variety and each shillings invested in PRELNOR supported fields generated 5.6 times above the baseline fields. The parameter estimate for profit function revealed that planting material, other production related costs, NAROCAS1, NASE14 and NASE19 were positively correlated with profit but labour and baseline field had negative correlations. Conversely, profit efficiency grew by 40% under improved varieties against local varieties. This study suggests that the difference in yields and profit between locations was caused by biophysical characteristic; disease tolerant varieties can tremendously improve profitability and income; meanwhile the profit gaps were partly attributed to inefficiency. This study recommends fast tracking adoption of pest and disease tolerant varieties and integrated research and development approach throughout the cassava value chain.Item Eleven years of breeding efforts to combat cassava brown streak disease(Breeding Science, 2016) Sezi Kawuki, Robert; Kaweesi, Tadeo; Esuma, Williams; Pariyo, Anthony; Kayondo, Ismail Siraj; Ozimati, Alfred; Kyaligonza, Vincent; Abaca, Alex; Orone, Joseph; Tumuhimbise, Robooni; Nuwamanya, Ephraim; Abidrabo, Philip; Amuge, Teddy; Ogwok, Emmanuel; Okao, Geoffrey; Wagaba, Henry; Adiga, Gerald; Alicai, Titus; Omongo, Christopher; Bua, Anton; Ferguson, Morag; Kanju, Edward; Baguma, YonaCassava (Manihot esculenta Crantz) production is currently under threat from cassava brown streak disease (CBSD), a disease that is among the seven most serious obstacles to world’s food security. Three issues are of significance for CBSD. Firstly, the virus associated with CBSD, has co-evolved with cassava outside its center of origin for at least 90 years. Secondly, that for the last 74 years, CBSD was only limited to the low lands. Thirdly, that most research has largely focused on CBSD epidemiology and virus diversity. Accordingly, this paper focuses on CBSD genetics and/or breeding and hence, presents empirical data generated in the past 11 years of cassava breeding in Uganda. Specifically, this paper provides: 1) empirical data on CBSD resistance screening efforts to identify sources of resistance and/or tolerance; 2) an update on CBSD resistance population development comprising of full-sibs, half-sibs and S1 families and their respective field performances; and 3) insights into chromosomal regions and genes involved in CBSD resistance based on genome wide association analysis. It is expected that this information will provide a foundation for harmonizing on-going CBSD breeding efforts and consequently, inform the future breeding interventions aimed at combating CBSD.Item Expansion of the cassava brown streak pandemic in Uganda revealed by annual field survey data for 2004 to 2017(Scientific Data, 2019) Alicai, Titus; Szyniszewska, Anna M.; Omongo, Christopher A .; Abidrabo, Phillip; Okao-Okuja, Geoffrey; Baguma, Yona; Ogwok, Emmanuel; Kawuki, Robert; Esuma, Williams; Tairo, Fred; Bua, Anton; Legg, James P.; Stutt, Richard O. J. H.; Godding, David; Sseruwagi, Peter; Ndunguru, Joseph; Gilligan, Christopher A.Cassava brown streak disease (CBSD) is currently the most devastating cassava disease in eastern, central and southern Africa affecting a staple crop for over 700 million people on the continent. A major outbreak of CBSD in 2004 near Kampala rapidly spread across Uganda. In the following years, similar CBSD outbreaks were noted in countries across eastern and central Africa, and now the disease poses a threat to West Africa including Nigeria - the biggest cassava producer in the world. A comprehensive dataset with 7,627 locations, annually and consistently sampled between 2004 and 2017 was collated from historic paper and electronic records stored in Uganda. The survey comprises multiple variables including data for incidence and symptom severity of CBSD and abundance of the whitefly vector (Bemisia tabaci). This dataset provides a unique basis to characterize the epidemiology and dynamics of CBSD spread in order to inform disease surveillance and management. We also describe methods used to integrate and verify extensive field records for surveys typical of emerging epidemics in subsistence crops.Item Field Level RNAi-Mediated Resistance to Cassava Brown Streak Disease across Multiple Cropping Cycles and Diverse East African Agro-Ecological Locations(Frontiers in plant science, 2017) Wagaba, Henry; Beyene, Getu; Aleu, Jude; Odipio, John; Okao-Okuja, Geoffrey; Deepika Chauhan, Raj; Munga, Theresia; Obiero, Hannington; Halsey, Mark E.; Ilyas, Muhammad; Raymond, Peter; Bua, Anton; Taylor, Nigel J.; Miano, Douglas; Alicai, TitusCassava brown streak disease (CBSD) presents a serious threat to cassava production in East and Central Africa. Currently, no cultivars with high levels of resistance to CBSD are available to farmers. Transgenic RNAi technology was employed to combat CBSD by fusing coat protein (CP) sequences from Ugandan cassava brown streak virus (UCBSV) and Cassava brown streak virus (CBSV) to create an inverted repeat construct (p5001) driven by the constitutive Cassava vein mosaic virus promoter. Twenty-five plant lines of cultivar TME 204 expressing varying levels of small interfering RNAs (siRNAs) were established in confined field trials (CFTs) in Uganda and Kenya. Within an initial CFT at Namulonge, Uganda, non-transgenic TME 204 plants developed foliar and storage root CBSD incidences at 96–100% by 12 months after planting. In contrast, 16 of the 25 p5001 transgenic lines showed no foliar symptoms and had less than 8% of their storage roots symptomatic for CBSD. A direct positive correlation was seen between levels of resistance to CBSD and expression of transgenic CP-derived siRNAs. A subsequent CFT was established at Namulonge using stem cuttings from the initial trial. All transgenic lines established remained asymptomatic for CBSD, while 98% of the non-transgenic TME 204 stake-derived plants developed storage roots symptomatic for CBSD. Similarly, very high levels of resistance to CBSD were demonstrated by TME 204 p5001 RNAi lines grown within a CFT over a full cropping cycle at Mtwapa, coastal Kenya. Sequence analysis of CBSD causal viruses present at the trial sites showed that the transgenic lines were exposed to both CBSV and UCBSV, and that the sequenced isolates shared >90% CP identity with transgenic CP sequences expressed by the p5001 inverted repeat expression cassette. These results demonstrate very high levels of field resistance to CBSD conferred by the p5001 RNAi construct at diverse agro-ecological locations, and across the vegetative cropping cycle.Item Genetic Gains for Yield and Virus Disease Resistance of Cassava Varieties Developed Over the Last Eight Decades in Uganda(Frontiers in Plant Science, 2021) Manze, Francis; Rubaihayo, Patrick; Ozimati, Alfred; Gibson, Paul; Esuma, Williams; Bua, Anton; Alicai, Titus; Omongo, Chris; Kawuki, Robert S.Achieving food security for an ever-increasing human population requires faster development of improved varieties. To this end, assessment of genetic gain for key traits is important to inform breeding processes. Despite the improvements made to increase production and productivity of cassava in Uganda at research level, there has been limited effort to quantify associated genetic gains. Accordingly, a study was conducted in Uganda to assess whether or not genetic improvement was evident in selected cassava traits using cassava varieties that were released from 1940 to 2019. Thirty-two varieties developed during this period, were evaluated simultaneously in three major cassava production zones; central (Namulonge), eastern (Serere), and northern (Loro). Best linear unbiased predictors (BLUPs) of the genotypic value for each clone were obtained across environments and regressed on order of release year to estimate annual genetic gains. We observed that genetic trends were mostly quadratic. On average, cassava mosaic disease (CMD) resistance increased by 1.9% per year, while annual genetic improvements in harvest index (0.0%) and fresh root yield (5 kg per ha or 0.03% per ha) were non-substantial. For cassava brown streak disease (CBSD) resistance breeding which was only initiated in 2003, average annual genetic gains for CBSD foliar and CBSD root necrosis resistances were 2.3% and 1.5%, respectively. It’s evident that cassava breeding has largely focused on protecting yield against diseases. This underpins the need for simultaneous improvement of cassava for disease resistance and high yield for the crop to meet its current and futuristic demands for food and industry.Item Genetic Relationships of Cassava Genotypes That are Susceptible or Tolerant to Cassava Brown Streak Disease in Uganda(Journal of Agricultural Science, 2013) Abaca, Alex; Kawuki, Robert; Tukamuhabwa, Phenihas; Baguma, Yona; Pariyo, Anthony; Alicai, Titus; Omongo, C. Christopher; Abidrabo, Phillips; Katono, Kasifa; Bua, AntonA total of 99 cassava genotypes whose field reaction to cassava brown streak disease (CBSD) was known, were assayed with 30 simple sequence repeat (SSR) markers to establish their genetic parallels. Two categories of CBSD reaction were considered: CBSD-susceptible genotypes (characterized by > 60% root and foliar CBSD incidence), and CBSD-tolerant genotypes (characterized by < 15% root and foliar CBSD incidence). DNA was extracted from leaf samples using the miniprep method and genotyped using ABI 3730 DNA sequencer. The test genotypes at 0.02 similarity coefficient, CBSD-tolerant and CBSD-susceptible genotypes clustered into 5 main sub-clusters. When data were subjected to principle component analysis (PCA) irrespective of the CBSD reaction grade, the first three principal components accounted for 68% of the total genetic variation. Despite having different number of individuals, the observed heterozygosity (Ho) for CBSD-susceptible (Ho = 0.58) and CBSD-tolerant (Ho = 0.66) were comparable and provide scope for long-term CBSD breeding and/or gene tapping.Item Production of friable embryogenic callus and regeneration of Ugandan farmer-preferred cassava genotypes(African Journal of Biotechnology, 2015) Apio, Hellen B.; Alicai, Titus; Baguma, Yona; Mukasa, Settumba B.; Bua, Anton; Taylor, NigelGeneration of embryogenic callus is a key step in genetic engineering of many crop species, including cassava. Protocols for generation of friable embryogenic callus (FEC) have been lacking for Ugandan cassava genotypes, thereby delaying their genetic engineering for agronomic and other desirable traits. The objective of this study was to determine conditions suitable for production and regeneration of FEC in the Ugandan cassava genotypes; Aladu, Bukalasa and Ebwanateraka, and control cultivar 60444. Immature leaf lobe explants were established on Murashige and Skoog (MS) based media for initiation of organized embryogenic callus (OES). To produce FEC, resulting OES were established on Gresshoff and Doy based callus induction media with varying levels of sucrose, maltose, tyrosine, tryptophan, naphthalene acetic acid (NAA) under light and dark conditions. Subsequently, FEC was subcultured to MS-based embryo maturation and embryo regeneration media. All genotypes produced OES. All genotypes produced FEC except Bukalasa. The amino acid tyrosine favoured production of FEC in Aladu and Ebwanatereka, but not in 60444, while 20 g/L of sucrose trigged production of FEC in Aladu and 60444, but 40 g/L of sucrose was superior for Ebwanatereka. Media supplemented with 1 ml/L naphthalene acetic acid NAA facilitated embryo regeneration in Ebwanatereka and 60444, while Aladu responded better to 5 ml/L NAA. Light, tyrosine and sucrose were essential for FEC production in Uganda cultivars while NAA was required for regeneration of somatic embryos. Ability to produce FEC in these genotypes lays a foundation for their improvement through genetic transformation for the desired and agronomic traits.Item RNAi-derived field resistance to Cassava brown streak disease persists across the vegetative cropping cycle(GM Crops & Food, 2014) Odipio, John; Ogwok, Emmanuel; Taylor, Nigel J.; Halsey, Mark; Bua, Anton; Fauquet, Claude M.; Alicai, TitusA confined field trial was established to determine durability of RNAi-mediated resistance to Cassava brown streak disease (CBSD). Stem cuttings were obtained from field-grown cassava plants of cv 60444 transgenic for construct p718, consisting of an 894 bp inverted repeat sequence from the Ugandan Cassava brown streak virus (UCBSV) coat protein. Plants were established from three transgenic lines previously shown to provide complete resistance to UCBSV and differing levels of protection to the non-homologous virus species Cassava brown streak virus (CBSV), and grown for 11 months. CBSD symptoms were observed on shoots and storage roots of all non-transgenic cv 60444 control plants and transgenic lines p718–002 and p718–005, but not on p718–001. RT-PCR diagnostic showed tissues of plant lines p718–002 and p718–005 to be infected with CBSV, but free of UCBSV. All leaves and roots of p718–001 plants were confirmed to carry no detectable levels of either pathogen. Plants of cv 60444 in this field trial showed severe cassava mosaic disease symptoms, indicating that presence of replicating geminiviruses did not cause significant suppression of RNAi-mediated resistance to CBSD. Resistance to CBSD across a vegetative cropping cycle confirms earlier field data, and provides an important step in proof of concept for application of RNAi technology to control of CBSD under conditions encountered in farmers’ fields.Item Transgenic RNA interference (RNAi)-derived field resistance to cassava brown streak disease(Molecular plant pathology, 2012) Ogwok, Emmanuel; Odipio, John; Halsey, Mark; Gaitán-Solís, Eliana; Bua, Anton; Taylor, Nigel J.; Fauquet, Claude M.; Alicai, TitusCassava brown streak disease (CBSD), caused by the Ipomoviruses Cassava brown streak virus (CBSV) and Ugandan Cassava brown streak virus (UCBSV), is considered to be an imminent threat to food security in tropical Africa. Cassava plants were transgenically modified to generate small interfering RNAs (siRNAs) from truncated full-length (894-bp) and N-terminal (402-bp) portions of the UCBSV coat protein (DCP) sequence. Seven siRNA-producing lines from each gene construct were tested under confined field trials at Namulonge, Uganda. All nontransgenic control plants (n = 60) developed CBSD symptoms on aerial tissues by 6 months after planting, whereas plants transgenic for the full-length DCP sequence showed a 3-month delay in disease development, with 98% of clonal replicates within line 718-001 remaining symptom free over the 11-month trial. Reverse transcriptase-polymerase chain reaction (RT-PCR) diagnostics indicated the presence of UCBSV within the leaves of 57% of the nontransgenic controls, but in only two of 413 plants tested (0.5%) across the 14 transgenic lines. All transgenic plants showing CBSD were PCR positive for the presence of CBSV, except for line 781-001, in which 93% of plants were confirmed to be free of both pathogens. At harvest, 90% of storage roots from nontransgenic plants were severely affected by CBSD-induced necrosis. However, transgenic lines 718- 005 and 718-001 showed significant suppression of disease, with 95% of roots from the latter line remaining free from necrosis and RT-PCR negative for the presence of both viral pathogens. Crossprotection against CBSV by siRNAs generated from the full-length UCBSV DCP confirms a previous report in tobacco.The information presented provides proof of principle for the control of CBSD by RNA interference-mediated technology, and progress towards the potential control of this damaging disease.Item The VIRCA Project: Virus resistant cassava for Africa(GM Crops & Food, 2012) Taylor, Nigel J.; Halsey, Mark; Gaitán-Solís, Eliana; Anderson, Paul; Gichuki, Simon; Miano, Douglas; Bua, Anton; Alicai, Titus; Fauquet, Claude M.The VIRCA (Virus Resistant Cassava for Africa) project is a collaborative program between the Donald Danforth Plant Science Center, USA the National Crops Resources Research Institute, Uganda and the Kenya Agricultural Research Institute, Kenya. VIRCA is structured to include all aspects of the intellectual property, technology, regulatory, biosafety, quality control, communication and distribution components required for a GM crop development and delivery process. VIRCA's goal is to improve cassava for resistance to the viral diseases cassava brown streak disease (CBSD) and cassava mosaic disease (CMD) using pathogen-derived RNAi technology, and to field test, obtain regulatory approval for and deliver these products to small landholder farmers. During Phase I of the project, proof of concept was achieved by production and testing of virus resistant plants under greenhouse and confined field trials in East Africa. In VIRCA Phase II, two farmer-preferred varieties will be modified for resistance to CBSD and CMD, and lead events identified after molecular and field screening. In addition to delivery of royalty-free improved planting materials for farmers, VIRCA capacity building activities are enhancing indigenous capability for crop biotechnology in East Africa.