Hybrid Cattle Research Articles

Study on intestinal microbial communities of three different cattle populations on Qinghai-Tibet Plateau.

The Tibetan cattle, indispensable·animals on the Qinghai-Tibet Plateau, have become a focal point for the region's economic development. As such, the hybridization of these cattle has been recognized as a pivotal strategy to enhance the local cattle industry. However, research on the gut microbiota of Tibetan hybrid cattle remains scarce. Based on this, we conducted a comparative analysis of the gut microbiota and its functional implications across three distinct cattle populations: two the hybrid cattle populations (Tibetan local cattle × Holstein cattle, TH and Tibetan local cattle × Jersey cattle, TJ) and one the Tibetan locoal cattle population (BL). Bacteroidetes and Firmicutes dominate the gut microbiota across all populations at the phylum level. In addition, the predominant phyla in BL cattle were found to be Cyanobacteria, Verrucomicrobiota, and Actinobacteria, which may be one of the important reasons for the adaptability of Tibetan local cattle to the high-altitude environment of the Qinghai-Tibet Plateau. Further analysis identified specific biomarkers associated with the immune systems of BL cattle, including Bacteroidales_RF16, Coriobacterium, and Muribaculaceae. In contrast, TH cattle are primarily dominated by Oscillospiraceae and Clostridia_UCG_014, and TJ cattle are mainly dominated by Christensenellaceae and Gammaproteobacteria. KEGG enrichment analysis revealed that BL and TH cattle showed significant enrichment in the immune system, energy metabolism, and amino acid metabolism-related pathways compared with TJ cattle. Overall, these results suggest that BL and TH cattle demonstrate enhanced adaptability compared to TJ cattle, and indicate that intestinal microbiota of cattle at different altitudes and breeds have diverse structures and functions. Our study presents a new perspective on the role of the microbiome in the hybridization and enhancement of Tibetan cattle.

Varieties and Physical Characteristics of Indigenous Cattle Breeds in Somalia: A Literature Review

The aim of this review was to find out the indigenous Somali cattle breeds in Mogadishu, Somalia and also what is the physical difference between them and what do other scholar wrote about them, this breeds have some unique characteristics and they have one thing in common which is important for pastoralist communities because pastoralists depend on these animals for their livelihood. This study found different types of indigenous breeds including Dawara, Surqo, Gassara, Saywal and Somali Boran those were originated in local community as well as other breeder were hybrid but all of them were resilient and sustainable for local pastoralists. The Somali cattle breeds occupy specific niches in terms of environment and diseases. They have cultural importance with milk and meat; and play roles in local economies supporting their livelihoods. The Boran breed, said to have originated from the Boran clan in south Ethiopia, is exposed to high temperatures and infectious diseases. They are not only good for meat but also produce substantial amounts of milk. The Gassara breed is smaller than other breeds and has been described as being less productive but able to survive under harsh conditions because they easily adapt and store fat – valuable features during droughts when pastures disappear. Similarly, the Dawara breed plays an important role among some pastoral Somali communities and remains culturally valued by them even though its milk yields have been recorded as being lower than those of other breeds. Saywal cattle is a local variety of the Sahiwal which is both a milk and meat producing breed that originated in India as evidenced by the history of trade activities on the livestock heritages in the region. The Surqo breed of cattle is a cross-breed between boran and dawara breeds hence their contribution to food security in certain regions of Somalia. Cattle hybrids, on the other hand, introduced in with the help of the Somali government through overseas artificial insemination have higher milk production but take time to adapt with the environment. Therefore, the protection of the genetic resources and unique characteristics of these locally developed breeds is of prerequisite importance to the livelihood of pastoralists and food security in Somalia. The study recommends establishing artificial insemination centers in all region were dominate with cattle husbandry to produce hybrids that combine the hardiness of local cattle breeds those have desirable productivity characteristics. Additionally, development international collaboration Such as agencies those have skilled in livestock biotechnology and also ability to enhance the effectiveness of breeding programs of cattle. Also make Improve management practices, including the rotational grazing and the development of water resources for rural areas, together with training for pastoralists and agro-pastoralists on modern husbandry techniques, are also essential.

Assessment of breeding and genetic parameters of milk productivity indicators of zebu cows-a prominent type of black-and-white breed

The article presents the results of an evaluation of the breeding and genetic parameters of milk productivity and breeding qualities of zeboid-type black-and-white cows. The level of coefficient of variability, interrelation and coefficient of heritability of indicators of dairy productivity of cows for the first, third and highest lactation in the herd of the Experimental station “Snegiri” — a branch of the Federal State Budgetary Institution of Science “N.V. Tsitsin Main Botanical Garden of the Russian Academy of Sciences” (Istra district, Moscow region) has been established. Currently, the herd at the experimental station consists of hybrid cattle created by crossbreeding black-and-white cattle with various zeboid subspecies (New Zealand, Indian, Azerbaijani, and Cuban), as well as with purebred Holstein-Friesians. As a result of extensive breeding work involving distant hybridization, unique animals have been developed that exhibit increased disease resistance, significant adaptive potential, and are undemanding in terms of feed and housing conditions under intensive milk production technology. Generally, the milk from zeboidtype black-and-white cattle is characterized by a comparatively higher concentration of nutrients — fats, proteins, milk sugar, and essential amino acids. The high nutritional value of the milk, combined with the enhanced adaptive abilities, characterizes the zeboid-type black-and-white cattle as potentially valuable animals, making breeding work with them justifiably highly relevant. The evaluation of breeding and genetic parameters will help uncover the potential for milk productivity, determine the directions for breeding work, and adjust selection methods to further enhance production and improve the breeding qualities of this type of dairy cattle.

Comparison of lipopolysaccharide-mediated peripheral blood mononuclear cell activation between Brahman and Brahman × Thai native crossbreed cattle.

Lipopolysaccharide (LPS) is a robust endotoxin known to activate the immune system in cattle. The objective of this study was to investigate the effect of LPS on the morphology, cell viability, malondialdehyde (MDA), nitric oxide (NO), and total antioxidant capacity (TAC) of peripheral blood mononuclear cells (PBMCs) in Brahman and Brahman × Thai native crossbreed cattle. PBMCs were isolated from Brahman and Brahman × Thai native crossbreed cattle and treated with 0, 0.1, 1, and 10 μg/mL Escherichia coli LPS, respectively. Morphological changes in PBMCs were assessed at 24 and 48 h. In addition, we measured PBMC cell viability, MDA, NO, and TAC. LPS stimulation caused cell deformation and partial PBMC area enlargement, but there were no differences between Brahman and Brahman × Thai native crossbreed cattle. Stimulation at all levels did not affect the viability of PBMCs (p > 0.05). MDA and NO levels were significantly higher in Brahman cattle than in Brahman Thai native crossbred cattle (p < 0.05). TAC was significantly higher in Brahman × Thai native crossbred cattle than in Brahman cattle (p < 0.05). Immune cells of crossbreed cattle have a higher activation response to LPS than those of purebred cattle, and native crossbreed beef cattle have a higher antioxidant capacity than purebred beef cattle. This result may explain why hybrid cattle of indigenous breeds are more resistant to disease than purebred cattle.

Effects of Different Generations and Sex on Physiological, Biochemical, and Growth Parameters of Crossbred Beef Cattle by Myostatin Gene-Edited Luxi Bulls and Simmental Cows.

(1) Background: Myostatin (MSTN) is a protein that regulates skeletal muscle development and plays a crucial role in maintaining animal body composition and muscle structure. The loss-of-function mutation of MSTN gene can induce the muscle hypertrophic phenotype. (2) Methods: Growth indexes and blood parameters of the cattle of different months were analyzed via multiple linear regression. (3) Results: Compared with the control group, the body shape parameters of F2 cattle were improved, especially the body weight, cross height, and hip height, representing significant development of hindquarters, and the coat color of the F2 generation returned to the yellow of Luxi cattle. As adults, MSTN gene-edited bulls have a tall, wide acromion and a deep, wide chest. Both the forequarters and hindquarters are double-muscled with clear muscle masses. The multiple linear regression demonstrates that MSTN gene-edited hybrid beef cattle gained weight due to the higher height of the hindquarters. Significant differences in blood glucose, calcium, and low-density lipoprotein. Serum insulin levels decreased significantly at 24 months of age. MSTN gene editing improves the adaptability of cattle. (4) Conclusions: Our findings suggest that breeding with MSTN gene-edited Luxi bulls can improve the growth and performance of hybrid cattle, with potential benefits for both farmers and consumers.

Analisis Perbandingan Sekuens Gen Calpain 1 (CAPN1) pada Sapi, Kerbau, dan Kambing Berdasarkan Database Genbank

Livestock genetic improvement is the main purpose of animal breeding program. Biotechnology brings novel method to improve the animal breeding program qualitatively and quantitatively. Identification of gene sequence of polymorphism are used widely to analyze gene sequence to understand genetic variation. Calpain 1 (CAPN1) gene is the gene that involve in the process of improving meat quality such as marbling and tenderness of the livestock including the cattle, buffalo, and goat species. CAPN1 is responsible in encoding the µ-calpain that regulate postmortem proteolysis. This study collect the gene database including calpain 1 [Bos taurus (cattle)] NC_037356.1, calpain 1 [Bos indicus (zebu cattle)] NC_032678.1, calpain 1 [Bos indicus x Bos taurus (hybrid cattle)] NC_040104.1, calpain 1 [Bubalus bubalis (water buffalo)] NC_059161.1 calpain 1 [Capra hircus (goat)] NC_030836.1 through NCBI. Those collected gene were analyze using the Clustal W alignment, MEGA 11, and BLAST program. The results indicate that the cattle, buffalo, and goat species CAPN1 gene of the 5’ UTR, Intron, Exon, dan 3’ UTR region show 9 SNPs, 1691 SNPs, 153 SNPs, and 197 SNPs, respectively. Total of the identified SNPs within the the cattle, buffalo, and goat species CAPN1 gene comparison are 2050. This study can be used for the initial report in order to develop further research related to CAPN1 gene for the livestock ruminant.

Adoption of artificial insemination technology and its intensity of use in Eastern Tigray National Regional State of Ethiopia

BackgroundThe study was focused on the adoption and intensity of adoption of artificial insemination (AI) Technology in Saesie-tsaedaemba District of Tigray Region, Ethiopia. AI is one of the most important and valuable dairy technology that has been used for genetic improvement for several years in the study area. However, there was little empirical information about major factors affecting adoption decision and intensity of AI in the study area. The purpose of this study was to evaluate the status of AI technology adoption and its intensity and to identify major factors influencing the adoption and intensity of use of AI technology.MethodsA multistage sampling technique was applied to select study sites and sample households. A structured interview was used to collect data from a total of 204 sample farmers. Besides, key informants interview was used to triangulate, validate, and enrich the findings of the household interview.ResultsResults of the tobit model regression revealed that households’ level of literacy, milk yield, income, training, access to extension service, mobile ownership, supplementation of concentrated feed and hybrid cattle ownership were found to have a positive and statistically significant relationship with adoption and intensity of AI technology, whereas distance to farmer training centre (FTC) office had shown a negative relationship.ConclusionsAdoption of context-based AI technology plays a paramount importance in achieving farm household's food security. The extension system should give more emphasis to the capacity building which is pivotal for introducing, adoption, and scaling out of best practices of dairy technologies. Besides the effort of the government, the participation of the private sector in AI technology is important to achieve wider adoption of AI technology.

Possible Consequences of Climate Change on Survival, Productivity and Reproductive Performance, and Welfare of Himalayan Yak (Bos grunniens).

Simple SummaryClimate change is a global issue, with a wide range of ecosystems being affected by changing climatic conditions including the Himalaya. Yak are exquisitely adapted to the high-altitude conditions of the Himalaya and are thus highly likely to be affected by climate change. This paper reviews the evidence of how the reported impacts of climate change on the environment and ecosystem of the Himalaya are affecting the survival, productivity and welfare of Himalayan Yak. This review identified that we do not know how big the impact of climate change is on yak as very few papers have measured that impact and, in many cases, potentially climate-change-related effects (such as changes in feed supply) are principally driven by human factors.Yak are adapted to the extreme cold, low oxygen, and high solar radiation of the Himalaya. Traditionally, they are kept at high altitude pastures during summer, moving lower in the winter. This system is highly susceptible to climate change, which has increased ambient temperatures, altered rainfall patterns and increased the occurrence of natural disasters. Changes in temperature and precipitation reduced the yield and productivity of alpine pastures, principally because the native plant species are being replaced by less useful shrubs and weeds. The impact of climate change on yak is likely to be mediated through heat stress, increased contact with other species, especially domestic cattle, and alterations in feed availability. Yak have a very low temperature humidity index (52 vs. 72 for cattle) and a narrow thermoneutral range (5–13 °C), so climate change has potentially exposed yak to heat stress in summer and winter. Heat stress is likely to affect both reproductive performance and milk production, but we lack the data to quantify such effects. Increased contact with other species, especially domestic cattle, is likely to increase disease risk. This is likely to be exacerbated by other climate-change-associated factors, such as increases in vector-borne disease, because of increases in vector ranges, and overcrowding associated with reduced pasture availability. However, lack of baseline yak disease data means it is difficult to quantify these changes in disease risk and the few papers claiming to have identified such increases do not provide robust evidence of increased diseases. The reduction in feed availability in traditional pastures may be thought to be the most obvious impact of climate change on yak; however, it is clear that such a reduction is not solely due to climate change, with socio-economic factors likely being more important. This review has highlighted the large potential negative impact of climate change on yak, and the lack of data quantifying that impact. More research on the impact of climate change in yak is needed. Attention also needs to be paid to developing mitigating strategies, which may include changes in the traditional system such as providing shelter and supplementary feed and, in marginal areas, increased use of yak–cattle hybrids.

Genome-wide local ancestry and evidence for mitonuclear coadaptation in African hybrid cattle populations

SummaryThe phenotypic diversity of African cattle reflects adaptation to a wide range of agroecological conditions, human-mediated selection preferences, and complex patterns of admixture between the humpless Bos taurus (taurine) and humped Bos indicus (zebu) subspecies, which diverged 150–500 thousand years ago. Despite extensive admixture, all African cattle possess taurine mitochondrial haplotypes, even populations with significant zebu biparental and male uniparental nuclear ancestry. This has been interpreted as the result of human-mediated dispersal ultimately stemming from zebu bulls imported from South Asia during the last three millennia. Here, we assess whether ancestry at mitochondrially targeted nuclear genes in African admixed cattle is impacted by mitonuclear functional interactions. Using high-density SNP data, we find evidence for mitonuclear coevolution across hybrid African cattle populations with a significant increase of taurine ancestry at mitochondrially targeted nuclear genes. Our results, therefore, support the hypothesis of incompatibility between the taurine mitochondrial genome and the zebu nuclear genome.

Assessing genomic diversity and signatures of selection in Pinan cattle using whole-genome sequencing data

BackgroundCrossbreeding is an important way to improve production beef cattle performance. Pinan cattle is a new hybrid cattle obtained from crossing Piedmontese bulls with Nanyang cows. After more than 30 years of cross-breeding, Pinan cattle show a variety of excellent characteristics, including fast growth, early onset of puberty, and good meat quality. In this study, we analyzed the genetic diversity, population structure, and genomic region under the selection of Pinan cattle based on whole-genome sequencing data of 30 Pinan cattle and 169 published cattle genomic data worldwide. ResultsEstimating ancestry composition analysis showed that the composition proportions for our Pinan cattle were mainly Piedmontese and a small amount of Nanyang cattle. The analyses of nucleotide diversity and linkage disequilibrium decay indicated that the genomic diversity of Pinan cattle was higher than that of European cattle and lower than that of Chinese indigenous cattle. De-correlated composite of multiple selection signals, which combines four different statistics including θπ, CLR, FST, and XP-EHH, was computed to detect the signatures of selection in the Pinan cattle genome. A total of 83 genes were identified, affecting many economically important traits. Functional annotation revealed that these selected genes were related to immune (BOLA-DQA2, BOLA-DQB, LSM14A, SEC13, and NAALADL2), growth traits (CYP4A11, RPL26, and MYH10), embryo development (REV3L, NT5E, CDX2, KDM6B, and ADAMTS9), hornless traits (C1H21orf62), and climate adaptation (ANTXR2).ConclusionIn this paper, we elucidated the genomic characteristics, ancestry composition, and selective signals related to important economic traits in Pinan cattle. These results will provide the basis for further genetic improvement of Pinan cattle and reference for other hybrid cattle related studies.

Whole-plant corn silage improves rumen fermentation and growth performance of beef cattle by altering rumen microbiota.

In recent years, whole-plant corn silage has been widely used in China. Roughage is an important source of nutrition for ruminants and has an important effect on rumen microbiota, which plays an important role in animal growth performance and feed digestion. To better understand the effects of different silages on rumen microbiota, the effects of whole-plant corn silage or corn straw silage on growth performance, rumen fermentation products, and rumen microbiota of Simmental hybrid cattle were studied. Sixty healthy Simmental hybrid cattle were randomly divided into 2 groups with 6 replicates in each group and 5 cattle in each replicate. They were fed with whole-plant corn silage (WS) diet and corn straw silage (CS) diet respectively. Compared with corn straw silage, whole-plant corn silage significantly increased daily gain and decreased the feed intake-to-weight gain ratio (F/G) of beef cattle. Whole-plant corn silage also decreased the acetic acid in the rumen and the acetate-to-propionate ratio (A/P) compared with corn straw silage. On the genus level, the relative abundance of Prevotella_1 was significantly increased while the relative abundance of Succinivibrionaceae_UCG-002 was decreased in cattle fed whole-plant corn silage compared with those fed corn straw silage. Prevotella_1 was positively correlated with acetic acid and A/P. Succinivibrionaceae_UCG-002 was positively correlated with propionic acid and butyric acid, and negatively correlated with pH. Feeding whole-plant corn silage improved amino acid metabolism, nucleotide metabolism, and carbohydrate metabolism. Correlation analysis between rumen microbiota and metabolic pathways showed that Succinivibrionaceae_UCG-002 was negatively correlated with glycan biosynthesis and metabolism, metabolism of co-factors and vitamins, nucleotide metabolism, and translation while Prevotellaceae_UCG-003 was positively correlated with amino acid metabolism, carbohydrate metabolism, energy metabolism, genetic information processing, lipid metabolism, membrane transport, metabolism of cofactors and vitamins, nucleotide metabolism, replication and repair, and translation. Ruminococcus_2 was positively correlated with amino acid metabolism and carbohydrate metabolism. Feeding whole-plant corn silage can improve the growth performance and rumen fermentation of beef cattle by altering rumen microbiota and regulating the metabolism of amino acids, carbohydrates, and nucleotides. KEY POINTS: • Feeding whole-plant corn silage could decrease the F/G of beef cattle • Feeding whole-plant corn silage improves rumen fermentation in beef cattle • Growth performance of beef cattle is related to rumen microbiota and metabolism.

Unraveling Admixture, Inbreeding, and Recent Selection Signatures in West African Indigenous Cattle Populations in Benin.

The Dwarf Lagune and the Savannah Somba cattle in Benin are typical representatives of the endangered West African indigenous Shorthorn taurine. The Lagune was previously exported to African and European countries and bred as Dahomey cattle, whereas the Somba contributed to the formation of two indigenous hybrids known as Borgou and Pabli cattle. These breeds are affected by demographic, economic, and environmental pressures in local production systems. Considering current and historical genomic data, we applied a formal test of admixture, estimated admixture proportions, and computed genomic inbreeding coefficients to characterize the five breeds. Subsequently, we unraveled the most recent selection signatures using the cross-population extended haplotype homozygosity approach, based on the current and historical genotypes. Results from principal component analyses and high proportion of Lagune ancestry confirm the Lagune origin of the European Dahomey cattle. Moreover, the Dahomey cattle displayed neither indicine nor European taurine (EUT) background, but they shared on average 40% of autozygosity from common ancestors, dated approximately eight generations ago. The Lagune cattle presented inbreeding coefficients larger than 0.13; however, the Somba and the hybrids (Borgou and Pabli) were less inbred (≤0.08). We detected evidence of admixture in the Somba and Lagune cattle, but they exhibited a similar African taurine (AFT) ancestral proportion (≥96%) to historical populations, respectively. A moderate and stable AFT ancestral proportion (62%) was also inferred for less admixed hybrid cattle including the Pabli. In contrast, the current Borgou samples displayed a lower AFT ancestral proportion (47%) than historical samples (63%). Irrespective of the admixture proportions, the hybrid populations displayed more selection signatures related to economic traits (reproduction, growth, and milk) than the taurine. In contrast, the taurine, especially the Somba, presented several regions known to be associated with adaptive traits (immunity and feed efficiency). The identified subregion of bovine leukocyte antigen (BoLA) class IIb (including DSB and BOLA-DYA) in Somba cattle is interestingly uncommon in other African breeds, suggesting further investigations to understand its association with specific adaptation to endemic diseases in Benin. Overall, our study provides deeper insights into recent evolutionary processes in the Beninese indigenous cattle and their aptitude for conservation and genetic improvement.

Accessing Livestock Resources in Ensembl.

Genome assembly is cheaper, more accurate and more automated than it has ever been. This is due to a combination of more cost-efficient chemistries, new sequencing technologies and better algorithms. The livestock community has been at the forefront of this new wave of genome assembly, generating some of the highest quality vertebrate genome sequences. Ensembl’s goal is to add functional and comparative annotation to these genomes, through our gene annotation, genomic alignments, gene trees, regulatory, and variation data. We run computationally complex analyses in a high throughput and consistent manner to help accelerate downstream science. Our livestock resources are continuously growing in both breadth and depth. We annotate reference genome assemblies for newly sequenced species and regularly update annotation for existing genomes. We are the only major resource to support the annotation of breeds and other non-reference assemblies. We currently provide resources for 13 pig breeds, maternal and paternal haplotypes for hybrid cattle and various other non-reference or wild type assemblies for livestock species. Here, we describe the livestock data present in Ensembl and provide protocols for how to view data in our genome browser, download via it our FTP site, manipulate it via our tools and interact with it programmatically via our REST API.

Conservation Policies, Eco-Tourism, and End of Pastoralism in Indian Himalaya?

State-led policies of pastoralist removal from protected areas, following the fortress model of biodiversity conservation, have been a common practice across parts of Asia and Africa. In the Himalayan region of South Asia, restrictive access and removal of pastoralist communities from protected areas have been compensated by the state through “eco”-tourism. In this paper, we critique the current conservation model adopted in the Indian Himalaya, which focuses on a conservation-pastoral eviction-ecotourism coupling. With a focus on pastoralists and pastoral practices, we argue that this model is neither an inclusive engine of development, nor does it always help conservation. Instead, it recreates a landscape favoring the state's interests, produces exclusions, and may also negatively affect both society and ecology. We build on the case of Khangchendzonga National Park (KNP) situated in Sikkim, Eastern Himalaya. We used mixed methods and conducted 48 semi-structured interviews, 10 key informant interviews, and two focused group discussion in the four village clusters situated in the vicinity of KNP, West Sikkim. The grazing ban policy and concomitant promotion of tourism caused the end of pastoralism in KNP. It transformed a pastoral cultural landscape into a tourist spot with a transition in livestock from the traditional herds of yak and sheep to the pack animals and non-native hybrid cattle. Locally perceived social impacts of the grazing ban include loss of pastoral culture, economic loss, and the exclusion of the pastoral community from the park. As per the respondents, perceived ecological effects include a decline in vegetation diversity in the high-altitude summer pastures, altered vegetation composition in the winter due to plantation of non-native tree species, and increased incidents of human-wildlife conflict. Rangelands of the Himalaya transcend political boundaries across countries. The conservation model in Himalaya, should henceforth be done with a trans-boundary level planning involving the prime users of high-altitude rangelands, i.e., the pastoralists. The lessons from this study can help design effective future policy interventions in landscapes critical for both pastoralist cultures and wildlife conservation.

Breed Ancestry, Divergence, Admixture, and Selection Patterns of the Simbra Crossbreed.

In this study, we evaluated an admixed South African Simbra crossbred population, as well as the Brahman (Indicine) and Simmental (Taurine) ancestor populations to understand their genetic architecture and detect genomic regions showing signatures of selection. Animals were genotyped using the Illumina BovineLD v2 BeadChip (7K). Genomic structure analysis confirmed that the South African Simbra cattle have an admixed genome, composed of 5/8 Taurine and 3/8 Indicine, ensuring that the Simbra genome maintains favorable traits from both breeds. Genomic regions that have been targeted by selection were detected using the linkage disequilibrium-based methods iHS and Rsb. These analyses identified 10 candidate regions that are potentially under strong positive selection, containing genes implicated in cattle health and production (e.g., TRIM63, KCNA10, NCAM1, SMIM5, MIER3, and SLC24A4). These adaptive alleles likely contribute to the biological and cellular functions determining phenotype in the Simbra hybrid cattle breed. Our data suggested that these alleles were introgressed from the breed's original indicine and taurine ancestors. The Simbra breed thus possesses derived parental alleles that combine the superior traits of the founder Brahman and Simmental breeds. These regions and genes might represent good targets for ad-hoc physiological studies, selection of breeding material and eventually even gene editing, for improved traits in modern cattle breeds. This study represents an important step toward developing and improving strategies for selection and population breeding to ultimately contribute meaningfully to the beef production industry.

108 Synchronization and artificial insemination of South African communal cattle

The present study aimed to evaluate an oestrous synchronization protocol and oestrus response before AI in cows from an organised communal production system. A total of 74 cows Bos indicus (Brahman) and Bos taurus/indicus hybrid (Nguni) type from different communal farmers were screened based on: age (3 to 8 years), body condition score of ≥3 (1–5 scale), not pregnant (excluding heifers), 90 days postpartum, number of parities, good mothering ability, and negative for contagious abortion. Selected cows were subjected to a 9-day OvSynch+CIDR protocol. In brief, the protocol included the insertion of controlled intravaginal drug release (CIDR®, Pfizer Laboratories) devices in the reproductive tract (vagina) containing 1.9g of progesterone in each cow on Day 0 with first oestradiol benzoate (Oestradiol benzoate®, VTech) 2-mL intramuscular (IM) injection. Pregnant mare serum gonadotrophin (PMSG; Chronogest®, Intervet International B.V.) 2.5-mL (IM) injection on Day 5. Removal of CIDR and (IM) injection of prostaglandin F2α (PGF2α; Estrumate®, Intervet South Africa (Pty.) Ltd.) 2mL on Day 8. Following CIDR removal, a heat mount detector (Kamar®) was applied on the individual cow’s tail head for oestrus observation (signs of heat) with second oestradiol benzoate 1-mL (IM) injection on Day 9. AI was performed 36h following withdrawal of the CIDR. Frozen/thawed semen from Bonsmara bulls (n=2) of known and proven fertility was used for AI. The GameteTek Cryo-Mobile laboratory was used during thawing of semen straws. and sperm motility and morphological traits were immediately evaluated by computer-assisted sperm analysis (Sperm Class Analyzer®) before each individual cow was inseminated. Pregnancy diagnosis was performed 90 days after timed AI by ultrasound and transrectal palpation. Data were analysed using the logistic regression procedure of SAS (SAS Institute Inc.), with synchronisation response and conception being treated as binary response variables. All cows were synchronized successfully and an oestrus response rate of 100% was recorded. Pregnancy rates were similar (37.8% vs. 38.9%) for both Bos indicus and Bos taurus/indicus hybrid cattle. Bulls total sperm motility of ≥75% were recorded, following thawing of semen straws. Thus, there was no effect of bull on pregnancy. In conclusion, acceptable oestrus synchronization response was achieved in this communal setup. Superior genetic materials can be successfully introduced through assisted reproductive technologies in organised communal production systems.

An insight into the evolutionary history of Indonesian cattle assessed by whole genome data analysis.

The domestication of Indonesian cattle was investigated through a study of their genetic diversity, up to the genome level. Little documentation exists regarding the history of domestication of Indonesian cattle and questions remain despite a growing body of molecular evidence. In this study, we genotyped seven Indonesian cattle breeds using an Illumina BovineSNP50 Bead Chip to provide insight into their domestication and demographic history in a worldwide population context. Our analyses indicated the presence of hybrid cattle, with Bos javanicus and Bos indicus ancestries being most prevalent, as well as purebred cattle. We revealed that all the breeds were interconnected through several migration events. However, their demographic status varied widely. Although almost all the Indonesian cattle had an effective population size higher than the minimum level required to ensure breed fitness, efforts are still needed to maintain their genetic variability and purity.

Inheritance patterns of leukocyte gene expression under heat stress in F1 hybrid cattle and their parents

Crossbreeding capitalizes on heterosis effects and results in increased performance of crossbred animals. Dominance hypothesis and overdominance hypothesis are 2 common models proposed to explain heterosis. Differential gene expression between parents and hybrids is hypothesized to be responsible for heterosis. This study aimed to investigate the heat tolerance and inheritance patterns of leukocyte transcriptomics in F1 hybrid cattle (Angus males × Droughtmaster females) and their parents Red Angus (AN) and Droughtmaster (DR) under heat stress. According to the respiratory rate and heat tolerance coefficient index, DR was better adapted to heat stress than AN. The physiological responses to heat stress of F1 hybrids were similar to AN. We identified 802 differentially expressed genes in leukocytes between AN and DR under heat stress using mRNA sequencing. Compared with AN, upregulated genes in DR were enriched in biological processes of response to stress, external and chemical stimulus, and cytokine, cell surface receptor signaling pathway, and cardiovascular system development. In contrast, upregulated genes in AN were enriched in B cell activation and regulation of B cell activation. Gene expression levels can be inherited additively or nonadditively and are classified into additive (35%), dominance (44%), and overdominance and underdominance (18%) modes in F1 hybrids and their parents. Inheritance patterns of gene expression showed that 97% (249/255) of the dominant genes were classified as paternal AN dominant in hybrids. The paternal imprinted PEG10 gene and its regulatory transcription factor MYC showed an AN dominant expression pattern. The MYC interacted with most AN dominant genes. These transcriptomic analyses revealed that DR and AN had specific cellular and humoral immunity and cardiovascular systems development function under heat stress. Inheritance pattern analyses from gene expression partly explained phenotypic differences between parents and F1 hybrids. The paternal imprinted PEG10 gene interaction with transcription factor MYC may contribute to explaining paternal dominant gene expression in hybrids.

Effects of livestock loss and emerging livestock types on livelihood decisions around protected areas: Case studies from China and India

Increasing livestock grazing in forests has intensified human-wildlife conflicts and caused habitat degradation for threatened species. To balance conservation and local community development, it is crucial to understand if livestock loss in natural habitats plays a role in household livelihood decisions. We used the giant panda habitat in China and the tiger habitat in India as case studies to investigate if livestock loss impacts livestock holding size and if higher loss rate shifts households away from livestock grazing in the future. We applied negative binomial regression and cost-benefit analysis to household level data from 281 Chinese households and 369 Indian households. We found that the livestock loss rate did not impact the number of livestock in China, but it did negatively impact the number of livestock in India. Chinese households were more constrained by labor availability for livestock expansion, while Indian households were limited by financial capacity. However, households tended to ignore the potential livestock loss in future livelihood decisions for both landscapes. Emerging livestock types could change the dynamic and the Indian case indicates a possible win-win solution. New hybrid cattle produced more than seven times the net benefit, but with only 46% potential cost of livestock loss compared to traditional cattle. Therefore, households can simultaneously produce more profits and reduce livestock loss by shifting to hybrid cattle. As higher profit is more important than perceived livestock loss risk in deciding the livelihood practices, better market instruments and assistance should be provided to promote the change.

Farming systems’ typologies analysis to inform agricultural greenhouse gas emissions potential from smallholder rain-fed farms in Kenya

Most sub-Saharan Africa smallholder farming systems are highly heterogeneous. Direct quantification of greenhouse gas emissions from these farming systems is hampered by diversity at farm-level. Each farm contributes differently to greenhouse gas (GHG) emissions and consequently GHG inventories. Typologies can be used as a mechanism of addressing farming systems’ heterogeneity by grouping them into specific farm types. With the GHG quantification simplification initiatives in mind, we developed smallholder farm typologies based on soil fertility inputs. We assessed nitrogen application rate, soil fertility management technologies and the socio-economic factors diversity among the farm typologies in the central highlands of Kenya. We used data from a cross-sectional household survey with a sample size of 300 smallholder farmers. We characterized the farm types using principal component analysis (PCA). To develop farm typologies, we subjected the PCA-derived typologies related factors to cluster analysis (CA). The results showed six farm types: Type 1, comprising cash crop and hybrid cattle farmers; Type 2, comprising food crop farmers; Type 3, composed of coffee-maize farmers; Type 4, comprising millet-livestock farmers; Type 5, comprising highly diversified farmers, and Type 6, comprising tobacco farmers. Land size owned, total tropical livestock unit, the proportion of land and nitrogen applied to different cropping systems were significant in the construction of farm typologies. Univariate analysis showed the household head's level of education, hired labour, group membership, access to extension services, and proportion of income from cropping activities as critical factors influencing farm typologies in the study area. This study demonstrates the importance of smallholder farm typologies in identifying greenhouse gas emissions hotspots, designing quantification experiment and policy framing. We concluded that policies and intervention measures targeting climate-smart agriculture at smallholder farms should consider not only farm-level soil fertility management technologies but also socio-economic characteristics that influence their adoption.