Livestock phenomics and genetic evaluation approaches in Africa: current state and future perspectives.

The African livestock sector plays a key role in improving the livelihoods of people through the supply of food, improved nutrition and consequently health. However, its impact on the economy of the people and contribution to national GDP is highly variable and generally below its potential. This study was conducted to assess the current state of livestock phenomics and genetic evaluation methods being used across the continent, the main challenges, and to demonstrate the effects of various genetic models on the accuracy and rate of genetic gain that could be achieved.

Assessment of cattle genetic introgression into domestic yak populations using mitochondrial and microsatellite DNA markers.

Hybridization between yak Poephagus grunniens and taurine Bos taurus or indicine B. indicus cattle has been widely practiced throughout the yak geographical range, and gene flow is expected to have occurred between these species. To assess the impact of cattle admixture on domestic yak, we examined 1076 domestic yak from 29 populations collected in China, Bhutan, Nepal, India, Pakistan, Kyrgyzstan, Mongolia and Russia using mitochondrial DNA and 17 autosomal microsatellite loci.

Livestock keeper perceptions of four indigenous cattle breeds in tsetse infested areas of Ethiopia.

Four cattle breeds indigenous to western and south-western Ethiopia--Abigar, Gurage, Horro and Sheko--were included in a study of the perceptions of smallholder cattle keepers regarding cattle management, production levels and constraints for production. A semi-structured questionnaire was used and 60 cattle keepers from each of the four areas were interviewed. Diseases were reported as the main constraint to cattle production by a majority of livestock keepers in all areas except in the Sheko area, where over-stocking was the main constraint.

Serum enzymes levels and influencing factors in three indigenous Ethiopian goat breeds.

Serum enzymes were studied in 163 apparently healthy goats from three indigenous goat breeds of Ethiopia. The effect of breed, age, sex and season on alanine aminotransferase (ALT) / glutamic pyruvic transaminase (GPT), aspartate aminotransferase (AST) / glutamic oxalacetic transaminases (GOT), alkaline phosphatase (ALP) and acid phosphatase (AcP) levels was assessed. The mean serum enzymes levels of the indigenous Arsi-Bale, Central Highland and Long-eared Somali goat breeds ranged from 14.

A field trial of production and financial consequences of helminthosis control in sheep production in Ethiopia.

We used a partial-budget analysis to evaluate profitability of different management strategies of three genotypes of sheep in a 2 x 2 x 3 factorial experiment conducted at Debre Berhan research station in the central highlands of Ethiopia. This involved two anthelmintic-treatment levels (treated vs. non-treated), two supplementary nutrition levels (protein-energy supplementation yes/no) and three genotypes: indigenous Menz (n=40), 50% Awassi x 50% Menz crosses (n=38) and 75% Awassi x 25% Menz crosses (n=31).

Effects of non-genetic factors on responses to gastro-intestinal nematode infections in Ethiopian sheep.

The effects of non-genetic factors on responses to gastrointestinal nematode infections were examined in artificially infected indigenous Horro and Menz lambs in the central highlands of Ethiopia. The experiment involved lambs of two sexes, infection and monitoring regimens (3 levels), dam parity (4 levels) and birth types (2 levels). A total of 152 weaner lambs (103 Menz and 49 Horro) were used.

The small east african shorthorn zebu cows in Kenya. I: linear body measurements.

Assessment of genetic diversity is a prerequisite for the management and conservation of animal genetic resources. Appropriate design of breeding programmes is therefore impossible for breeds that have not been adequately characterized either phenotypically and/or genetically. Phenotypic characteristics are important in breed identification and classification in ways that farming communities can relate with.

Genetic diversity and differentiation of Mongolian and Russian yak populations.

In this study we examined the genetic diversity of yak populations in the northernmost part of their current global distribution. Five Mongolian and one Russian yak populations as well as one Chinese yak population from the Qinghai-Tibetan Plateau, the putative centre of yak domestication, were analysed with 15 microsatellite loci to determine the level of genetic variation within populations as well as the genetic differentiation and relationship between populations. A total of 116 microsatellite alleles were identified.

Patterns of growth and partitioning of fat depots in tropical fat-tailed Menz and Horro sheep breeds.

A total of 147 Menz and Horro lambs of both sexes were serially slaughtered and dissected at five different stages of growth to define the pattern of growth and partitioning of fat among body depots in indigenous Ethiopian Menz and Horro sheep breeds. The GLM procedure of SAS and allometric growth equation were used to assess the effects of various factors on the growth of body depots and to estimate its growth relative to total carcass fat (TCF) and empty body weight (EBW), respectively. Results obtained showed that the growth of carcass fat (CF), non-carcass fat (NCF) and tail fat (TF) is significantly affected by the genotype (P<0.

Risk factors for mortality associated with respiratory disease among Menz and Horro sheep in Ethiopia.

A retrospective case-control study was conducted on 6718 sheep of two breeds (2772 Horro and 3946 Menz) on risk factors for mortality associated with respiratory disease (MARD) in Ethiopia, based on data collected between October 1993 and December 1997. Potential risk factors examined were breed, gender, age, month, and air temperatures.Fifty-four per cent of total deaths in the flock could be attributed to respiratory disease and the annual MARD rate ranged between 6.

Genetic diversity and relationships of indigenous Kenyan camel (Camelus dromedarius) populations: implications for their classification.

The genetic diversity and relationships amongst the dromedary (Camelus dromedarius) populations are poorly documented. Four recognized Kenyan dromedary breeds (Somali, Turkana, Rendille, Gabbra) and dromedary from Pakistan and the Arabian Peninsula (Saudi Arabia, United Arab Emirates) were studied using 14 microsatellite loci. Phylogenetic analysis showed that Kenyan dromedaries are distinct from Arabian and Pakistani populations.

Hybridization of banteng (Bos javanicus) and zebu (Bos indicus) revealed by mitochondrial DNA, satellite DNA, AFLP and microsatellites.

Hybridization between wild and domestic bovine species occurs worldwide either spontaneously or by organized crossing. We have analysed hybridization of banteng (Bos javanicus) and zebu (Bos indicus) in south-east Asian cattle using mitochondrial DNA (PCR-RFLP and sequencing), AFLP, satellite fragment length polymorphisms (SFLP or PCR-RFLP of satellite DNA) and microsatellite genotyping. The Indonesian Madura zebu breed is reputed to be of hybrid zebu-banteng origin, but this has never been documented and Bali cattle are considered to be a domesticated form of banteng.

African pastoralism: genetic imprints of origins and migrations.

The genetic history of African cattle pastoralism is controversial and poorly understood. We reveal the genetic signatures of its origins, secondary movements, and differentiation through the study of 15 microsatellite loci in 50 indigenous cattle breeds spanning the present cattle distribution in Africa. The earliest cattle originated within the African continent, but Near East and European genetic influences are also identified.

Reproductive characteristics of Ethiopian highland sheep. II. Genetic parameters of semen characteristics and their relationships with testicular measurements in ram lambs.

A study was conducted to investigate the effect of season on, and to estimate heritabilities of, and genetic correlations among, semen and spermatozoa characteristics and the relationship of these characteristics with measures of testicular or scrotal size in 6-, 9- and 12-month old ram lambs of Menz and Horro sheep breeds indigenous to Ethiopian highlands. A total of 278 ram lambs with substantial pedigree information were involved in the study. There was improvement in all semen and spermatozoa traits with age, the means at 12 months being consistently superior to values at 6 and 9 months of age.

Between and within breed variation in lamb survival and the risk factors associated with major causes of mortality in indigenous Horro and Menz sheep in Ethiopia.

Data collected on 3256 lambs born to Horro and Menz breed ewes single-sire mated to 71 rams at the International Livestock Research Institute (ILRI) Debre Berhan station between September 1992 and June 1996 were analysed for rates of survival and growth from birth to weaning. A significantly lower proportion of Menz lambs died before 1 year of age (28%) than the Horro lambs (59%). Least squares means for pre- and post-weaning mortality were 8.

Reproductive characteristics of Ethiopian highland sheep. I. Genetic parameters of testicular measurements in ram lambs and relationship with age at puberty in ewe lambs.

A study was conducted to estimate heritabilities of, and genetic correlations among, body weight (WT) and testicular measurements - scrotal circumference (SC), testicular diameter (TD), testicular length (TL) and epididymal diameter (ED) - in ram lambs between 6, 9 and 12 months old, and relationship of the testicular traits with age at puberty in ewe lambs (AP). Two fat-tailed sheep breeds, the Horro and Menz, indigenous to the Ethiopian highlands were studied. Experimental lambs were produced by mating 250 oestrus-synchronized ewes of each breed to 10 sires in a single-sire mating system over three mating periods which produced, for this study, a total of 361 ram lambs and 148 ewe lambs, with substantial pedigree information, in two dry seasons (October/November 1992 and 1993) and one wet season (June/July 1993).

Geographic distribution and frequency of a taurine Bos taurus and an indicine Bos indicus Y specific allele amongst sub-saharan African cattle breeds.

We report for the first time, and for the whole of sub-Saharan Africa, the geographical distribution and the frequency of an indicine and a taurine Y specific allele amongst African cattle breeds. A total of 984 males from 69 indigenous African populations from 22 countries were analysed at the microsatellite locus INRA 124. The taurine allele is probably the oldest one on the continent.

Breed and season effects on the peri-parturient rise in nematode egg output in indigenous ewes in a cool tropical environment.

A study was carried out at the International Livestock Research Institute (ILRI) Debre Berhan Research Station in Ethiopia from 1992 to 1995 to compare the peri-parturient rise (PPR) in faecal nematode egg counts (FEC) in ewes of two indigenous sheep breeds. A total of 1439 Menz and 1347 Horro ewes were single sire mated following oestrus synchronization to lamb in the wet and dry season. Three ewe treatment groups were constituted as mated/lactating/undrenched; mated/lactating/drenched; unmated/undrenched for three wet and three dry lambing seasons.

The epidemiology of nematode infections in sheep in a cool tropical environment.

The epidemiology of nematode infections in Menz sheep was studied in the highlands of Ethiopia at the International Livestock Research Institute (ILRI), Debre Berhan Research Station, using a series of tracer lambs grazing contaminated pasture for either 4, 16, 32 or 48 weeks from July 1992 to June 1994. The basic nematode seasonal infectivity pattern was expressed in terms of relative numbers of third-stage larvae (L3) available on pasture for different months. Data from faecal nematode egg counts, pasture larval recoveries and worm counts from the tracer lambs were used to investigate the infectivity pattern.

Effect of birth date on growth performance of calves of seasonally-bred range cattle.

This study was undertaken to investigate the relationship between date of birth and growth performance of calves born to seasonally-bred range beef cows. Late-born calves exhibited an apparent superiority in preweaning growth over that of their early-born counterparts. This was attributed to a positive residual effect of maternal environment arising from the fact that calves born late were those whose dams had a substantial proportion of the critical last trimester of the gestation period in a favourable season.

Genetic and environmental variation in reproductive and lactational performance of Jersey cattle in the coastal lowland semi-humid tropics.

Reproductive and lactational performances, including length of productive life, were evaluated from records for 1960 to 1988 for a Jersey herd in coastal lowland semi-humid Kenya. The herd grazed natural pastures and until the mid 1970s received supplementary feeding. Mean performance included 31 months age at first calving, lactation milk yield (MY) of 1,788 kg in 3.

Repeatability of measurements of packed cell volume and egg count as indicators of endoparasite load and their relationship with sheep productivity.

Monthly measurements of packed cell volume (PCV) and nematode and trematode eggs per gram (EPG) were made in Ethiopian highland sheep at Debre Berhan, Dejen, Deneba, Tulu Meko and Wereilu from June 1988 to December 1989. High frequencies of low PCV, high nematode EPG and high trematode EPG were found at Tulu Meko. Among the productivity traits examined, body condition scores and live-weights were significantly (P less than 0.

Influences of dam on calving difficulty and early calf mortality.

Influence of dam on calving difficulty and calf mortality was evaluated for repeatability of past performance and daughter-dam relationships. Repeatability for calving performance at first with second parity was .16 and for consecutive calvings at second and later parities .