| Literature DB >> 30189034 |
Yoseph W Legesse1,2, Christopher D Dunn3, Matthew R Mauldin4,5, Nicte Ordonez-Garza3, Gage R Rowden3, Yoseph Mekasha Gebre6, Mohammed Y Kurtu1,2, Seid Mohammed Ali2, Wondmagegne D Whibesilassie1,2, Michael Ballou7, Melaku Tefera8, Gad Perry9, Robert D Bradley3,10.
Abstract
Dromedary camels (Camelus dromedarius) are a domesticated and closely guarded economic staple of indigenous people located throughout Ethiopian territorial states. Seventeen morphometric variables were examined to determine intraspecific variation among 8 pastoralist-designated breeds of camels. Additionally, DNA sequences from mitochondrial cytochrome-b gene and genotyping of 6 nuclear microsatellite loci were examined to assess genetic diversity and phylogenetic relationship of Ethiopian camels. Examination of 525 individuals revealed significant morphometric differentiation in Afar as compared with the remaining 7 breeds. Analysis of cytochrome-b sequences failed to recover monophyletic groups associated with pastoralist-recognized breeds. Analysis of 6 microsatellite loci from 104 individuals depicted no resolution of distinct genetic lineages in accordance to geographical or designated breeds. Overall, separation of 2 ecotypes based on the morphometric data was supported; however, genetic analysis of cytochrome-b and microsatellite data failed to support any unique genetic lineage or statistically significant population structure.Entities:
Mesh:
Year: 2018 PMID: 30189034 PMCID: PMC6276583 DOI: 10.1093/jas/sky351
Source DB: PubMed Journal: J Anim Sci ISSN: 0021-8812 Impact factor: 3.159
Number of individuals used for exomorphic and molecular studies in 8 ecotypes
| Ecotype | Sampled tissue | Microsatellite study | Exomorphic study |
| Distribution |
|---|---|---|---|---|---|
| Jigjiga | 34 | 13 | 71 | 3 | Jigjiga zone, ESRS1 |
| Issa | 30 | 13 | 71 | 3 | Sitti zone, ESRS |
| Hoor | 34 | 13 | 71 | 2 | Jarar, Korahe, and Shebelle zones, ESRS |
| Ayden | 33 | 13 | 70 | 6 | Jarar, Korahe, and Shebelle zones ESRS |
| Liben | 32 | 13 | 66 | 7 | Liben zone, ESRS |
| Borena | 32 | 13 | 69 | 3 | Borana zone, ORSE2 |
| Kerreyu | 27 | 13 | 54 | 5 | East Shoa, ORSE |
| Afar | 30 | 13 | 63 | 3 | Zone 3, ARSE3 |
| 252 | 104 | 535 | 32 | Ethiopia |
1ESRS = Ethiopian Somali Regional State.
2ORSE = Oromia Regional State of Ethiopia.
3ARSE = Afar Regional State of Ethiopia.
Figure 1.Distribution of localities and ecotypes that were collected for this study. Circles represent collection localities within each of the 3 regions.
Description of the 17 exomorphic characteristics and abbreviations
| Abbreviation | Description |
|---|---|
| Face length (FL) | Distance from midpoint of ears to mouth tip |
| Distance between eyes (DBE) | Distance between the most medial part of each eye |
| Neck length (NL) | Distance from lower part of mandible to sternum |
| Height at hump (HAH) | Height from bottom of front foot to highest point of withers |
| Length of forelimb (LOF) | Distance from surface of the ground level to front of sternum |
| Depth of chest (DOC) | Distance from wither to sternum |
| Width of chest (WOC) | Distance from left to right upper leg |
| Weight | Weight in kilograms of each individual |
| Barrel girth (BG) | Measurement of distance around abdomen over highest part of hump |
| Hump circumference (HC) | Perimeter of hump from a point at anterior end of hump to a point at posterior end |
| Hump length (HL) | Length from bottom to tip of the hump |
| Body length (BL) | Horizontal distance from point of shoulder to pin bone |
| Width of hip distance (WOH) | Distance from left to right point of hip |
| Length of hind limb (LOHL) | Distance from bottom of leg to pin hip bone |
| Tail length (TL) | Maximum distance from tail base to tip of tail |
| Hind leg hoof circumference (HLHC) | Circumference of right hind leg hoof around widest part |
| Foreleg hoof circumference (FLHC) | Circumference of right foreleg hoof around widest part |
| Ear length (EL) | Length of external ear from base of skull to tip of ear |
| Height at shoulder (SH) | Height (vertical) from the bottom of the front foot to the highest point of the withers |
| Heart or chest girth (HG) | Circumference of the body immediately behind the shoulder blades in a vertical plane, perpendicular to the long axis of the body as quantified |
Principal components and discriminant functions, loadings and percentage of variants explained by PCA and DFA analyses on 17 exomorphic variables of Ethiopian dromedary camels
| Variables | PCA | DFA | ||||
|---|---|---|---|---|---|---|
| Loadings | PCA eigenvalues | PCA percent variation | Loadings | |||
| PC1 | PC2 | DF1 | DF2 | |||
| Face length | 0.1177 | −0.1102 | 0.2299 | 59.48503227 | 0.4555 | 0.1906 |
| Distance between eyes | 0.2350 | −0.2796 | 0.0569 | 14.72796452 | 1.4139 | −0.1947 |
| Ear length | 0.2200 | −0.8335 | 0.0364 | 9.42071884 | 1.0826 | 2.2696 |
| Neck length | 0.1043 | −0.0727 | 0.0247 | 6.38081374 | 0.2156 | −0.1365 |
| Height at shoulder | 0.0712 | 0.0034 | 0.0107 | 2.77758491 | −0.1447 | 0.3308 |
| Length of hind limb | 0.0631 | −0.0593 | 0.0064 | 1.66901725 | −0.4932 | −0.1664 |
| Depth of chest | 0.2682 | 0.1517 | 0.0059 | 1.5205097 | 0.4450 | −1.5173 |
| Width of chest | 0.3924 | 0.2055 | 0.0039 | 1.01215999 | 1.0030 | −0.2650 |
| Heart or chest girth | 0.1094 | 0.0684 | 0.0028 | 0.72268549 | −0.2242 | −0.2886 |
| Barrel girth | 0.1484 | 0.1383 | 0.0024 | 0.60867413 | −0.0887 | 0.0012 |
| Hump circumference | 0.4481 | 0.2932 | 0.0019 | 0.50064712 | 0.7363 | −0.7786 |
| Hump length | 0.5114 | −0.0199 | 0.0015 | 0.38036484 | −0.0781 | 0.5090 |
| Height at hump | 0.1003 | 0.0274 | 0.0010 | 0.27029641 | −0.4138 | 0.4637 |
| Body length | 0.1300 | 0.1576 | 0.0008 | 0.21416278 | 0.3266 | −0.2217 |
| Width of hip | 0.3236 | −0.0573 | 0.0006 | 0.15191386 | 0.0602 | −0.1100 |
| Length of hind limb | 0.0502 | −0.0441 | 0.0003 | 0.08769881 | 0.2750 | −0.0072 |
| Tail length | 0.0785 | 0.0009 | 0.0003 | 0.06975536 | −0.4559 | 0.1568 |
DFA = discriminant function analysis; PCA = principle component analysis.
Characterization of 7 microsatellite loci in Ethiopian camels, primer sequences, number of alleles, polymorphic informative content (PIC) value, and observed (Ho) and expected (He) heterozygosity
| Locus1 | Label/Ta | Alleles, no. | Ho | He | PIC |
|---|---|---|---|---|---|
| VOLP03 | 6-FAM/64 | 11 | 0.613 | 0.528 | 0.324 |
| F: AGA CGG TTG GGA AGG TGG TA | |||||
| R: CGA CAG CAA GGC ACA GGA | |||||
| VOLP10 | 6-FAM/55 | 9 | 0.709 | 0.657 | 0.845 |
| F: CTT TCT CCT TTC CTC CCT ACT | |||||
| R: CGT CCA CTT CCT TCA TTT C | |||||
| VOLP67 | 6-FAM/53 | 21 | 0.455 | 0.640 | 0.883 |
| F: TTA GAG GGT CTA TCC AGT TTC | |||||
| R: TGG ACC TAA AAG AGT GGA G | |||||
| YWLL 08 | 6-FAM/55 | 7 | 0.396 | 0.538 | 0.648 |
| F: ATC AAG TTT GAG GTG CTT TCC | |||||
| R: CCA TGG CAT TGT GTT GAA GAC | |||||
| LCA56 | HEX/55 | 3 | 0.234 | 0.285 | 0.324 |
| F: ATG GTG TTT ACA GGG CGT TG | |||||
| R: GCA TTA CTG AAA AGC CCA GC | |||||
| LCA63 | HEX/58 | 11 | 0.249 | 0.689 | 0.768 |
| F: TTA CCC AGT CCT TCG TGG G | |||||
| R: GGA ACC TCG TGG TTA TGG AA | |||||
| LCA77 | HEX/55 | 1 | – | – | – |
| F: TGT TGA CTA GAG CCT TTT CTT CTT T | |||||
| R: GGG CAA GAG AGA CTG ACT GG |
1F = forward; R = reverse.
Standard deviation, maximum length, minimum length, average between both male and female, average for female, and average for males using 17 exomorphic variables for 535 individuals
| Variables | Male ( | Female ( | Male and female ( | Maximum length | Minimum length | SD |
|---|---|---|---|---|---|---|
| Face length | 56.41 | 56.38 | 56.38 | 62 | 47 | 3.15 |
| Distance between eyes | 27.25 | 27.21 | 27.22 | 30 | 18 | 2.69 |
| Ear length | 13.38 | 13.36 | 13.36 | 16 | 5 | 1.37 |
| Neck length | 106.72 | 106.67 | 106.67 | 119 | 90 | 7.35 |
| Height at shoulder | 195.73 | 195.71 | 195.71 | 220 | 170 | 9.77 |
| Length of hind limb | 148.36 | 148.34 | 148.34 | 171 | 128 | 7.64 |
| Depth of chest | 75.64 | 75.58 | 75.58 | 96 | 50 | 10.59 |
| Width of chest | 63.54 | 63.46 | 63.46 | 90 | 34 | 12.29 |
| Heart or chest girth | 207.05 | 207.01 | 207.01 | 241 | 175 | 14.46 |
| Barrel girth | 244.9 | 244.89 | 244.89 | 291 | 115 | 25.42 |
| Hump circumference | 142.56 | 142.3 | 142.3 | 270 | 75 | 30.78 |
| Hump length | 32.62 | 32.51 | 32.51 | 60 | 15 | 8.66 |
| Height at hump | 210.94 | 210.85 | 210.85 | 253 | 184 | 12.54 |
| Body length | 148.7 | 148.7 | 148.7 | 181 | 115 | 14.35 |
| Width of hip | 42.48 | 42.45 | 42.45 | 61 | 30 | 6.75 |
| Length of hind limb | 155.88 | 155.88 | 155.88 | 178 | 137 | 7.40 |
| Tail length | 59.41 | 59.42 | 59.42 | 71 | 40 | 5.39 |
Figure 2.Graphical representation of DF1 and DF2 function analysis, based on size and shape of vectors.
Figure 3.Plot of components 1 and 2 obtained from the PCA analysis of exomorphic characteristics of Ethiopian camels. Values in parentheses give the amount of variation explained by each principle component. PCA = principle component analysis.
Figure 4.Haplotype network of the 33 cyt-b sequences for the 8 Ethiopian ecotypes.
Figure 5.Bayesian cladogram with posterior probability indicated by * for 95% or greater depicting no discernable geographic pattern. Ecotypes are abbreviated to A (Ayden), AF (Afar), I (Issa), H (Hoor), K (Kerreyu), J (Jigjiga), L (Liben), and B (Borana).
Figure 6.Structure results for the genotype information for all individuals included in this study. Specimen labels are shown below the genotype bar graph. Shading denotes the estimated proportion of the specimen’s nuclear genome attributed to each cluster.