The Domestication Makeup: Evolution, Survival, and Challenges

Ahmad, Hafiz Ishfaq; Ahmad, Muhammad Jamil; Jabbir, Farwa; Ahmar, Sunny; Ahmad, Nisar; Elokil, Abdelmotaleb A.; Chen, Jinping

doi:10.3389/fevo.2020.00103

Cited by 42 publications

(33 citation statements)

References 243 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Species can develop their repair system through gene duplication and gene loss that often occurs in their populations [ 17 ]. Copy number variations of DNA repair genes will result from the species-specific history of gene duplication and loss, which will have a profound effect on organismal phenotypes such as mutation rates [ 16 ], lifespan [ 71 ], and adaptation to extreme environments [ 72 , 73 ].…”

Section: Discussionmentioning

confidence: 99%

Structural and Evolutionary Adaptations of Nei-Like DNA Glycosylases Proteins Involved in Base Excision Repair of Oxidative DNA Damage in Vertebrates

Ahmad

Afzal

Sadia

et al. 2022

Oxidative Medicine and Cellular Longevity

Self Cite

View full text Add to dashboard Cite

Oxidative stress is a type of stress that damages DNA and can occur from both endogenous and exogenous sources. Damage to DNA caused by oxidative stress can result in base modifications that promote replication errors and the formation of sites of base loss, which pose unique challenges to the preservation of genomic integrity. However, the adaptive evolution of the DNA repair mechanism is poorly understood in vertebrates. This research aimed to explore the evolutionary relationships, physicochemical characteristics, and comparative genomic analysis of the Nei-like glycosylase gene family involved in DNA base repair in the vertebrates. The genomic sequences of NEIL1, NEIL2, and NEIL3 genes were aligned to observe selection constraints in the genes, which were relatively low conserved across vertebrate species. The positive selection signals were identified in these genes across the vertebrate lineages. We identified that only about 2.7% of codons in these genes were subjected to positive selection. We also revealed that positive selection pressure was increased in the Fapy-DNA-glyco and H2TH domain, which are involved in the base excision repair of DNA that has been damaged by oxidative stress. Gene structure, motif, and conserved domain analysis indicated that the Nei-like glycosylase genes in mammals and avians are evolutionarily low conserved compared to other glycosylase genes in other “vertebrates” species. This study revealed that adaptive selection played a critical role in the evolution of Nei-like glycosylase in vertebrate species. Systematic comparative genome analyses will give key insights to elucidate the links between DNA repair and the development of lifespan in various organisms as more diverse vertebrate genome sequences become accessible.

show abstract

Section: Discussionmentioning

confidence: 99%

Structural and Evolutionary Adaptations of Nei-Like DNA Glycosylases Proteins Involved in Base Excision Repair of Oxidative DNA Damage in Vertebrates

Ahmad

Afzal

Sadia

et al. 2022

Oxidative Medicine and Cellular Longevity

Self Cite

View full text Add to dashboard Cite

show abstract

“…Over millennia, domestic animals have been subjected to artificial selection aiming to modify their appearance and productive abilities (Ahmad et al ., 2020). This process is expected to leave a characteristic genomic signature which can be recognised by features such as the presence of long haplotypes, reduced diversity and biased SNP allele frequencies (Schlamp et al ., 2016).…”

Section: Discussionmentioning

confidence: 99%

Red and blond Mangalitza pigs display a signature of divergent directional selection in theSLC45A2gene

et al. 2020

View full text Add to dashboard Cite

SummaryThe Mangalitza lard‐type pig breed is well known for its fat appearance and curly hair, and it is mainly distributed in Eastern Europe. Four main lines were created in the nineteenth century by artificial selection: Blond Mangalitza, Black Mangalitza, Swallow‐Belly Mangalitza and Red Mangalitza. The Swallow‐Belly line has a black coat combined with yellow‐blond throat and underbelly. In the current work, we aimed to investigate if the colourations of Mangalitza pigs are genetically determined by one or a few loci whose frequencies have been modified by artificial selection. The results of selection scans, with HapFLK and BayeScan, and of a GWAS for coat colour highlighted the existence of one region on SSC16 (18–20 Mb) with potential effects on hair pigmentation (Red vs. Blond contrast). The analysis of the gene content of this region allowed us to detect the solute carrier family 45 member 2 (SLC45A2) locus as a candidate gene for this trait. The polymorphism of the SLC45A2 locus has been associated with reduced levels or the absence of melanin in several mammalian species. The genotyping of four missense polymorphisms evidenced that rs341599992:G > A and rs693695020:G > A SNPs are strongly but not fully associated with the red and blond coat colours of Mangalitza pigs, a result that was confirmed by performing a haplotype association test. The near fixation of alternative SLC45A2 genotypes in Red and Blond Mangalitza pigs provides a compelling example of the consequences of a divergent directional selection for coat colour in a domestic species.

show abstract

“…Figure 3 shows, as an example, the migratory cattle routes for both Bos taurus (humpless) and Bos indicus (with a hump, derived from Zebu) from the Fertile Crescent into Africa. These migrations apparently took place as early as 10,000 BP for B. taurus and 4000 BP for B. indicus to reach the more southern parts of Africa [ 10 , 11 , 12 ]. During their voyage into Africa, animals were exposed to a multitude of new challenges ranging from droughts, shortage of food, endo- and ecto-parasites, as well as the Anopheles mosquito, the vector causing malaria via trypanosomes in both humans and cattle [ 12 ].…”

Section: Migrations Into Africamentioning

confidence: 99%

“…For instance, in the case of livestock, selection for more rapid growth has drawn resources away from features such as brain size and acuity of sense organs, which are less important under captive conditions [ 22 ]. Similarly, intensive selection of valuable animals for ecological, aesthetical, and economic reasons has resulted in breeds or individuals that are often not able to adapt rapidly sufficiently to changes in the environment resulting from human activities or climate change [ 11 , 15 ]. One possible way to address such lack of or slow adjustment to environmental changes is to switch to species or breeds that are better adapted to the eminent changes or to use them to crossbreed with existing purebred animals.…”

Section: Advantages and Use Of Indigenous Domestic Animalsmentioning

confidence: 99%

Origin, Migration, and Reproduction of Indigenous Domestic Animals with Special Reference to Their Sperm Quality

Horst

Maree

2022

Animals

View full text Add to dashboard Cite

Indigenous domestic animals such as cattle, sheep, goats, pigs, and chickens have a natural resistance to endo- and ecto-parasites and are tolerant in terms of harsh environmental conditions. These species orginated from the Fertile Cresent between 12,000 and 10,000 BP before migrating into surrounding continents. In view of limited information on the reproductive status of indigenous breeds, it is important to examine their semen characteristics in order to select males to improve livestock production. We have largely relied on existing literature but also our published and ongoing research on sperm quality assessment of several indigenous breeds. The sperm quality of these breeds is similar to current commercial breeds and has been quantified using cutting-edge methods. In this context, we have presented sperm functional tests which provide a better estimate of semen quality than just a standard semen analysis. Initial results suggest that the indigenous breeds have a high sperm quality and sperm functionality similar to currently farmed exotic or crossbreeds. In the long-term, the importance of preserving the favorable traits of these breeds is a priority in view of crossbreeding with existing good meat and milk producers.

show abstract

The Domestication Makeup: Evolution, Survival, and Challenges

Cited by 42 publications

References 243 publications

Structural and Evolutionary Adaptations of Nei-Like DNA Glycosylases Proteins Involved in Base Excision Repair of Oxidative DNA Damage in Vertebrates

Structural and Evolutionary Adaptations of Nei-Like DNA Glycosylases Proteins Involved in Base Excision Repair of Oxidative DNA Damage in Vertebrates

Red and blond Mangalitza pigs display a signature of divergent directional selection in theSLC45A2gene

Origin, Migration, and Reproduction of Indigenous Domestic Animals with Special Reference to Their Sperm Quality

Contact Info

Product

Resources

About