3D genome organization and its study in livestock breeding

Eukaryotic genomes are hierarchically packaged into cell nucleus,affecting gene regulation.The genome is organized into multiscale structural units,including chromosome territories,compartments,topologically associating domains(TADs),and DNA loops.The identification of these hierarchical structures has benefited from the development of experimental approaches,such as 3C-based methods(Hi-C,ChIA-PET,etc.),imaging tools(2D-FISH,3D-FISH,Cryo-FISH,etc.)and ligation-free methods(GAM,SPRITE,etc.).In recent two decades,numerous studies have shown that the 3D organization of genome plays essential roles in multiple cellular processes via various mechanisms,such as regulating enhancer activity and promoter-enhancer interactions.However,there are relatively few studies about the 3D genome in livestock species.Therefore,studies for exploring the function of 3D genomes in livestock are urgently needed to provide a more comprehensive understanding of potential relationships between the genome and production traits.In this review,we summarize the recent advances of 3D genomics and its biological functions in human and mouse studies,drawing inspiration to explore the 3D genomics of livestock species.We then mainly focus on the biological functions of 3D genome organization in muscle development and its implications in animal breeding.

A Lifeline for Livestock

Chinese-invented Juncao grass is transforming dairy production in Kenya At his dairy farm in Kiambu County on the outskirts of the Kenyan capital Nairobi,Newton Mwangi anxiously takes off his boots and work suit after milking his cows.Mwangi is worried about the inability of the cows to hit the 80-litre target he needs to fulfil for his clients per day,due to a woeful fodder shortage in Kenya.

Characterisation of Smallholder Multiple Livestock Species Production Systems in Parts of Lake Victoria Crescent of Central Uganda

A cross-sectional study of 150 purposively selected multiple livestock species farmers was conducted in Central Uganda aimed at distinguishing between mixed and integrated livestock systems. Performance and operational-based challenges misconstrued to cause incorrect comparison between the two systems were considered. Ten multiple-livestock species system with five ruminant species-based and five monogastric species-based combinations were categorised. Poultry, pig, fish, goats and sheep kept in both the 3 and 4-species combinations were considered. Over 80% of the families are male dominated, smallholder and occupying > 1.0 Ha of land. Exotic and crossbred breeds were adopted away from less productive and noncommercial local species. Mixed monogastric-fish systems with monogastric species dominated (P 1000) stock per farm. Stalls dominate pig management systems with 15% of the farmers upgraded to commercial level with (>50) stock per farm. Ineffective livestock policies contribute to inefficient performance of 55% of livestock farmers. In conclusion, mixed livestock systems should be upgraded to integrated livestock systems with input resource synergy for improved production and sustainability.

First molecular identification of multiple tick‑borne pathogens in livestock within Kassena‑Nankana,Ghana

The risk of pathogen transmission continues to increase significantly in the presence of tick vectors due to the trade of livestock across countries.In Ghana,there is a lack of data on the incidence of tick-borne pathogens that are of zoonotic and veterinary importance.This study,therefore,aimed to determine the prevalence of such pathogens in livestock using molecular approaches.A total of 276 dry blood spots were collected from cattle(100),sheep(95)and goats(81)in the Kassena-Nankana Districts.The samples were analyzed using Polymerase Chain Reaction(qPCR)and conventional assays and Sanger sequencing that targeted pathogens including Rickettsia,Coxiella,Babesia,Theileria,Ehrlichia and Anaplasma.An overall prevalence of 36.96%was recorded from the livestock DBS,with mixed infections seen in 7.97%samples.Furthermore,the prevalence of infections in livestock was recorded to be 19.21%in sheep,14.13%in cattle,and 3.62%in goats.The pathogens identified were Rickettsia spp.(3.26%),Babesia sp.Lintan(8.70%),Theileria orientalis(2.17%),Theileria parva(0.36%),Anaplasma capra(18.48%),Anaplasma phagocytophilum(1.81%),Anaplasma marginale(3.26%)and Anaplasma ovis(7.25%).This study reports the first molecular identification of the above-mentioned pathogens in livestock in Ghana and highlights the use of dry blood spots in resource-limited settings.In addition,this research provides an update on tick-borne pathogens in Ghana,suggesting risks to livestock production and human health.Further studies will be essential to establish the distribution and epidemiology of these pathogens in Ghana.

Supplemental feeding on rangelands:new dynamics of the livestock in the El Ouara rangelands in southern Tunisia

Fodder production in arid rangelands has been traditionally considered as the main source of nutrition for livestock.However,the production of these fodder may be influenced by some socio-economic and climatic factors.This study aims to identify the various rangeland use forms and determine the types of livestock feeding system in the El Ouara rangelands of Ben guarden District in southern Tunisia by analysing the importance of supplemental feeding and main determinants of this practice.Data were collected by a survey that targeted a sample of 50 breeders in the El Ouara rangelands.Descriptive statistics and binary logistic regression were used to analyse the data.The results showed that there are two types of association practiced by breeders:“Cherka”association practiced by 10.00% of breeders and cash payment association practiced by 53.00% of breeders.Then,transhumance,sedentary,and semi-urban forms are the main ways in which breeders use the rangelands.There are four livestock feeding systems in the El Ouara rangelands being used to feed livestock:natural rangeland,rangeland-based,mixed,and concentrate-based feeding systems.Supplemental feeding has become fundamental for the livestock feeding system in the El Ouara rangelands.The breeders with the largest camel size still use the natural rangeland feeding system,while the breeders who have the largest herd size practice the mixed feeding system.The logistic regression results reveal that breeder age,cereal area,herd size,migrant remittance,second activity,and agricultural development group membership can significantly impact the supplemental feeding.In summary,this study can help policy-makers plan innovative practices based on climatic change,ensure the sustainability of livestock feeding system,and make effective decisions for local development.

Role and Effects of Eucommia ulmoides Leaves in the Growth Process of Livestock and Poultry

Substitutes of feed antibiotics have been a key research topic in the new stage of animal husbandry.Chinese veterinary medicine refers to decoction pieces and their preparations processed from natural plants,animals,and minerals and used for animal disease prevention and improvement of animal production performance under the guidance of Chinese veterinary pharmacy theory.Eucommia ulmoides leaf extract has many active functional components such as chlorogenic acid,E.ulmoides polysaccharides and flavonoids,which have many biological properties such as antibacterial,antioxidant,immune-regulation,sugar ester-and bone metabolism-regulation effects.This paper explored active ingredients and biological properties of E.ulmoides leaf extract,as well as its role and effects in livestock and poultry breeding,providing a scientific basis for the use of E.ulmoides leaves in livestock and poultry breeding.

Ethnopharmacological Assessment of Medicinal Plants Used in the Management of Livestock Ailments by Resource-Limited Farmers in the Eastern Cape Province

Medicinal plants play a major role in meeting people’s medical and health needs, especially in developing countries. However, due to a lack of access to modern veterinary facilities, poor visibility of animal health personnel, and high prices of orthodox medicines, most farmers rely on traditional healers and the administration of medicinal plants to treat livestock ailments. The present study was conducted to document Ethnopharmacological knowledge of medicinal plants used to manage livestock ailments in three rural communities of the Eastern Cape. This study was carried out in three rural communities between July 2009 and February 2010. Data were collected by administering pre-tested semi-structured questionnaires and participative field observations. For the interviews, a sample of 48 knowledgeable respondents was purposively selected. Data were analyzed using descriptive and inferential statistics, determination of information consensus factor, and fidelity level. A total of 12 medicinal plants belonging to 9 families were used by local people to cure different ailments. A high number of medicinal plants were claimed by males compared to females. Roots and barks were the major plant parts used, and the least were leaves (27.3%). Six plants were used to treat diarrhea and fertility, five plants to treat wounds, and two plants to treat scabs. This study has shown that Eastern Cape flora is rich with various plants which could be used to replace orthodox drugs. Further studies are needed to determine the minimum inhibitory concentrations, biological activities, and toxicities and characterize the plant’s chemical compounds.

Recovery Status and Livestock Use of a Kenyan Montane Forest a Decade after Cessation of Human Encroachment

Montane forest ecosystems support biodiversity and provide varied ecosystem services to adjacent and downstream human communities. However, human-induced disturbances are common in many of these ecosystems, threatening their capacity to sustain their functions. This study assessed the status of woody vegetation and livestock use of a Kenyan montane forest 10 years after government-sanctioned cessation of human encroachment. The findings can inform suitable interventions that support recovery of abandoned forest settlements subjected to continuous anthropogenic disturbances. Selected woody vegetation attributes and livestock disturbance indicators were assessed across three human-driven disturbance regimes (light, moderate and heavy) using stratified-systematic sampling technique. Data on the extent of community dependence on forest grazing were collected from 381 randomly selected forest adjacent households using semi-structured questionnaires. Information on the palatability of plants to livestock was obtained from Focus Group Discussions. Vegetation data were analyzed using linear mixed models, while descriptive analysis was applied on household survey data. A total of 33 woody plant species belonging to 22 families were identified, out of which 55% were perceived to be unpalatable to livestock. Species richness, species diversity, stem density and basal areas declined significantly with increasing levels of disturbance. Specifically, these attributes were 59% - 98% lower in heavily disturbed sites than in moderately and lightly disturbed sites. A vast majority (88%) of the sampled households grazed their livestock in the forest throughout the year. Evidence from this study indicates that intense past and ongoing anthropogenic disturbances caused significant negative effects on the forest vegetation condition, and lowered its capacity to recover. Forest managers should prioritize minimizing recurrent anthropogenic disturbances as the forest recovers to ensure successful succession and sustainable provision of ecosystem services.

Utilisation of Non-Conventional Animal Waste as Feeds by Multiple Livestock Species Farmers in Lake Victoria Crescent of Central Uganda

A cross-sectional survey was conducted to establish the utilisation of non-conventional animal waste in multiple livestock species systems. Farmers (150) were selected from four out of ten districts of Central Uganda in Lake Victoria Crescent. A structured questionnaire was used and descriptive analysis showed that over 80% are smallholder farmers on 3.0) years. Household husbands (80%) significantly (P 1.0) as they cause poor livestock health due to pathogens, parasites and toxins which are associated (OD > 1.0) with poor growth, mortality and condemnation of livestock products. The remedy to unsafe non-conventional feeds is to apply effective solar-heating (75%), chemical and ensiling treatment methods. The study showed that there are no significant (P < 0.001) public health risks associated with utilising treated non-conventional feeds instead it improves production and sustainability of multiple livestock species systems.

WebGIS-based Early Warning System of Farmland Environmental Pollution Caused by Livestock Waste

[Objective]The paper was to quickly get the real-time dynamic status of regional farmland environmental pollution caused by livestock wastes.[Method] With WebGIS as spatial information platform,the network and digital early warning system of farmland environmental pollution caused by livestock wastes was established.[Result] The system realized the functions such as livestock wastes calculation,livestock information query and analysis,nitrogen load quantity estimation of livestock waste,early warning of farmland environmental pollution caused by livestock wastes and visual display of result.[Conclusion] The paper provided scientific basis for the relevant research on farmland environmental pollution caused by livestock wastes.

Research Progress on Resource Utilization of Livestock and Poultry Manure

Although mass livestock and poultry breeding brought magnificent econom-ic benefits to the society, it made great harm to the environment. By reviewing the current status of environmental pol ution caused by livestock and poultry manure in China, harm-free treatment technology for livestock and poultry manure including fer-tilization technology, feed processing technology and energy technology were elabo-rated so as to address the existing issues in this regard and provide references for resource utilization and eliminating environmental pol ution through modified technical system and environment laws.

Spatiotemporal patterns of the forage-livestock balance in the Xilin Gol steppe,China:implications for sustainably utilizing grassland-ecosystem services

Understanding the spatiotemporal patterns of the forage-livestock balance is imperative for regionally arranging animal husbandry production while ensuring sustainable grassland-ecosystem service use.The Xilin Gol steppe is an important native grassland resource in Inner Mongolia Autonomous Region,China.This study aimed to elucidate the dynamics of the forage-livestock balance in the Xilin Gol steppe during the period 2000–2015.We evaluated the forage production and corresponding livestock carrying capacity(LCC)in the growing seasons of 2000–2015 using remote sensing data and field surveys.The spatiotemporal patterns of the forage-livestock balance were then assessed at regional,city(including city,county and banner),and village scales using statistical and household survey data.The results showed that both forage production and LCC decreased in the Xilin Gol steppe from east to west.During the period 2000–2015,the regional average forage production and corresponding LCC fluctuated without following a distinct trend,but were consistent with the variations in precipitation.The forage-livestock balance varied with time,space,and scale.At the regional scale,steppes were overgrazed in the early 2000s,but a forage-livestock balance or even grazing potential was achieved in other years.At the city scale,approximately half of the region exhibited a"forage-livestock balance"since 2000.However,about half of the region still experienced overgrazing,which mainly located in the southwest sandy zones.Such changes may have been affected by the variations in grassland quality,forage production,compensation payment,and so on.We suggest a location-specific management scheme for grazing constraints,ecological compensation payment,and industry development to aid in harmonizing animal husbandry and environmental restoration,while promoting sustainable development goals by 2030.

Present Situation,Problems and Countermeasures for Harmless Treatment of Dead Livestock and Poultry in Fujian

A serial of management and support policy for harmless treatment of dead livestock and poultry had been formulated in Fujian Province, and the effect was remarkable. But there were still some problems in the implementation of the policy, the technique of harmless treatment, livestock insurance and invcstigation and punishment of illegal behavior. Therefore, the following countermeasures were put forward： strengthen the responsibility system for harmless treatment of dead livestock and poultry; adjust harmless treatment mode to local conditions; build centralized treatment plant; punish illegal and criminal activities strictly; improve linkage policy of insurance and harmless treatment of livestock and poultry.

Electronic Identification of Livestock to Improve Turkey＇s Animal Production System

Major disease outbreaks, increasing demand for animal food products, intensification of animal production systems, increased consumer awareness about food quality and safety, as well as heightened consciousness about animal welfare issues has seen the need for more reliable animal identification in Turkey＇s animal production system. Animal identification and traceability systems have seen rapid development in the world＇s main livestock producing nations and have been recognised by the main food, health and livestock trading authorities. The benefit of this system affects all the participants in the food chain （farm to fork） by limiting the spread of animal disease, assuring food safety and quality, minimizing the potential trade loss and minimizing government control. Electronic identification （EID） is one of the main technologies adopted, whereby each individual animal is identified and traced through a unique identification number saved on an electronic transponder （eartag or bolus）. The present animal identification and registration system in Turkey does not use an electronic identification tool and is administered manually which often causes unreliable and incorrect results. Concerns for animal and human health, as well as food safety assurance, have motivated efforts in Turkey to intensify animal identification system. This paper has provided the basis for how animals can be accurately traced and monitored from their birth until their slaughter, tracking every single parameter that could be of interest： animal health history, disease control, milk/meat/wool production and nutrition. This study summarizes information on EID available from around the world, discusses the advantages and challenges in its application in Turkey and provides recommendations as to the systems suitability to upgrade the present status of the Turkish National Livestock Identification System.

POULTRY AND LIVESTOCK FEED RPOCESSING EQUIPMENT OF CAAMS POULTRY & LIVESTOCK QUIPMENT DEPARTMENT

ETS Series Multi-functional ExtruderSpecificationCharacteristicsThe extruder has the function ofextruding raw material and finishedproduct. With different configuration,

Alginate oligosaccharides preparation, biological activities and their application in livestock and poultry

Alginate oligosaccharides(AOS), belonging to the class of functional marine oligosaccharides, are low-molecular polymers linked by β-1,4-mannuronic acid(M) and α-1,4-guluronic acid(G), which could be classically obtained by enzymatic hydrolysis of alginate. With low viscosity and good water solubility, as well as anti-oxidant, immune regulation, anti-bacterial and antiinflammatory activities, AOS have been widely used in medical science and functional food, green agriculture and other fields. As new bio-feed additives, AOS have broad potential applications in animal husbandry. In this review, the sources of alginate, chemical structure and preparation methods of AOS, and their biological activities and application in livestock and poultry are summarized. We expect this review could contribute to lay a foundation of application and further research for AOS in livestock and poultry.

Manipulation of spermatogonial stem cells in livestock species

We are entering an exciting epoch in livestock biotechnology during which the fundamental approaches(such as transgenesis, spermatozoa cryopreservation and artificial insemination) will be enhanced based on the modern understanding of the biology of spermatogonial stem cells(SSCs) combined with the outstanding recent advances in genomic editing technologies and in vitro cell culture systems. The general aim of this review is to outline comprehensively the promising applications of SSC manipulation that could in the nearest future find practical application in livestock breeding. Here, we will focus on 1) the basics of mammalian SSC biology;2) the approaches for SSC isolation and purification;3) the available in vitro systems for the stable expansion of isolated SSCs;4) a discussion of how the manipulation of SSCs can accelerate livestock transgenesis;5) a thorough overview of the techniques of SSC transplantation in livestock species(including the preparation of recipients for SSC transplantation,the ultrasonographic-guided SSC transplantation technique in large farm animals, and the perspectives to improve further the SSC transplantation efficiency), and finally, 6) why SSC transplantation is valuable to extend the techniques of spermatozoa cryopreservation and/or artificial insemination. For situations where no reliable data have yet been obtained for a particular livestock species, we will rely on the data obtained from studies conducted in rodents because the knowledge gained from rodent research is translatable to livestock species to a great extent. On the other hand, we will draw special attention to situations where such translation is not possible.

Future livestock breeding： Precision breeding based on multiomics information and population personalization

With the rapid development of molecular biology and related disciplines, animal breeding has moved from conventional breeding to molecular breeding. Marker-assisted selection and genomic selection have become mainstream practices in molecular breeding of livestock. However, these techniques only use information from genomic variation but not multi-omics information, thus do not fully explain the molecular basis of phenotypic variations in complex traits. In addition, the accuracy of breeding value estimation based on these techniques is occasionally controversial in different populations or varieties. Given the rapid development of high-throughput sequencing techniques and functional genome and dramatic reductions in the overall cost of sequencing, it is possible to clarify the interactions between genes and formation of phenotypes using massive sets of omic-level data from studies of the transcriptome, proteome, epigenome, and metabolome. During livestock breeding, multi-omics information regarding breeding populations and individuals should be taken into account. The interactive regulatory networks governing gene regulation and phenotype formation in diverse livestock population, varieties and species should be analyzed. In addition, a multi-omics regulatory breeding model should be constructed. Precision, population-personalized breeding is expected to become a crucial practice in future livestock breeding. Precision breeding of individuals can be achieved by combining population genomic information at multi-omics levels together with genomic selection and genome editing techniques.

Impacts of livestock grazing on a savanna grassland in Kenya

The dynamics of most rangelands in Kenya remain to be poorly understood. This paper provides baseline information on the response of a semiarid rangeland under different livestock grazing regimes on land inhabited by the Massai people in the east side of Amboseli National Park in Kenya. The data were collected from grasslands designated into four types： （1） grassland from previous Massai settlements that had been abandoned for over twenty years; （2） grassland excluded from livestock grazing for eight years; （3） a dry season grazing area; and （4） a continuous grazing area where grazing occurred throughout all seasons. Collected data included grass species composition, grass height, inter-tuft distance, standing grass biomass and soil characteristics. The results indicated that continuous grazing area in semiarid rangelands exhibited loss of vegetation with negative, long-term effects on grass functional qualities and forage production, whereas grassland that used traditional Maasai grazing methods showed efficiency and desirable effects on the rangelands. The results also showed that abandoned homestead sites, though degraded, were important nutrient reservoirs.

Perspectives of pluripotent stem cells in livestock

The recent progress in derivation of pluripotent stem cells(PSCs)from farm animals opens new approaches not only for reproduction,genetic engineering,treatment and conservation of these species,but also for screening novel drugs for their efficacy and toxicity,and modelling of human diseases.Initial attempts to derive PSCs from the inner cell mass of blastocyst stages in farm animals were largely unsuccessful as either the cells survived for only a few passages,or lost their cellular potency;indicating that the protocols which allowed the derivation of murine or human embryonic stem(ES)cells were not sufficient to support the maintenance of ES cells from farm animals.This scenario changed by the innovation of induced pluripotency and by the development of the 3 inhibitor culture conditions to support naïve pluripotency in ES cells from livestock species.However,the long-term culture of livestock PSCs while maintaining the full pluripotency is still challenging,and requires further refinements.Here,we review the current achievements in the derivation of PSCs from farm animals,and discuss the potential application areas.