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Genetic Testing of Feral Horses. E. Gus Cothran Dept. Veterinary Integrated Biosciences College of Veterinary Medicine and Biomedical Science Texas A&M University. Testing began in early 1990s. Usually at the request of an individual from a specific HMA or a private individual. - PowerPoint PPT Presentation
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E. Gus CothranDept. Veterinary Integrated Biosciences
College of Veterinary Medicine and Biomedical Science
Texas A&M University
Genetic Testing of Feral Horses
Testing began in early 1990s.Usually at the request of an individual from a
specific HMA or a private individual.Used blood group and biochemical
polymorphisms. This required taking two blood samples from
every horse.Information supplied by the BLM ranged from
none to herd management plans. Usually just a form like the following.
17 loci were routinely tested.Sample sizes varied but were usually between
25 to 75 animals.Standard measures of genetic variability
were calculated for each herd.The values were compared to those of
domestic horse breeds and to other feral herds.
N Ho He Fis Ae TNV15 Mile Herd 2000 29
0.431 0.416 -0.037 2.128 33
15 Mile Herd 1991 47 0.379 0.365 -0.038 1.847 34White Mountain 40 0.340 0.368 0.077 2.249 37McCullough Peaks 41 0.405 0.431 0.060 2.205 34Green Mountain 40 0.380 0.339 -0.120 1.883 27Muskrat Basin 38 0.374 0.352 -0.061 1.876 30 Thoroughbred 265 0.294 0.288 -0.019 1.780 34Arabian 117 0.307 0.327 0.061 1.846 38Andalusian 140 0.348 0.362 0.039 1.993 44Shetland Pony 50 0.368 0.407 0.095 2.210 38Welsh Pony 42 0.388 0.387 -0.002 2.127 47American Saddlebred 259 0.404 0.409 0.013 2.354 54Peruvian Paso 141 0.451 0.445 -0.014 2.506 46Belgian Draft 82 0.427 0.415 -0.028 2.279 35 Feral Horse Mean 54 0.360 0.351 -0.035 1.913 30.0Standard Deviation 0.051 0.053 0.118 0.246 6.72Domestic Horse Mean 118 0.371 0.365 -0.014 2.076 36.4Standard Deviation 0.049 0.043 0.065 0.240 7.37
Genetic variability measures.
Genetic similarity and distance measures also are calculated.
These are compared to the major domestic breed groups.
Depending upon the State comparisons to other herds from the area or State may be done.
Dendrograms are given showing similarity to domestic breeds or other feral herds from the state.
Mean S Std Minimum MaximumLight Racing and Riding Breeds 0.792 0.024 0.744 0.822 Oriental and Arabian Breeds 0.800 0.023 0.765 0.844 Old World Iberian Breeds 0.797 0.024 0.775 0.816 New World Iberian Breeds 0.805 0.023 0.754 0.833 North American Gaited Breeds 0.808 0.023 0.771 0.835 Heavy Draft Breeds 0.813 0.021 0.751 0.867 True Pony Breeds 0.785 0.025 0.743 0.845
Rogers’ genetic similarity of the McCullough Peaks feral horse herd to major groups of domestic horses.
+--MORGAN HORSE +----| | | +----STANDARDBRED PACER | +------| - +--| +------STANDARDBRED TROTTER | | | | +----AMERICAN SADDLEBRED | | +---| | +--| +-------ROCKY MOUNTAIN HORSE | | | +-------TENNESSEE WALKER | +--| +--QUARTER HORSE | | | | | +--| +----HANOVARIAN | | | | | | | | | | +--------TRAKEHNER | | | +--| +--| | | | | | | +-----------HOLSTEIN | | | | | +--| | | | +--| | +-----THOROUGHBRED | +--| | +--| | | | +----WIELKOPOLSKI +--| | | | | | +-------SELLA FRANCAIS | | | | | | +-----KHUZESTAN ARABIAN | | | +--| | | | | | +ARABIAN | | +---| +--| | | | +---------SHAGYA ARABIAN --| | | | | +----------KURD | | | | +---------------AKHAL TEKE | +--| | | +-----------CASPIAN PONY | +--| | +-----TURKOMAN | +---------MCCULLOUGH PEAKS
SIMILARITY.76 .80 .84 .88 .92 .96 1.00----+----+----+----+----+----+----+----+----+----+----+---+ +-------------------------- Stewart Creek +-----| | +-------------------------- Eagles Nest +----| | | +----------------------- Cooper Creek +-| +--------| | | +----------------------- Green Mountain +--------| | | | +------------------------------------- White Mountain +--| | | | +--------------------------------------- Happy Creek Springs +-| | | | +------------------------------------------------ 15 Mile Herd +-| | | | +--------------------------------------------------- Cedar Ridge Trap | | +| +----------------------------------------------------- Tilley Creek || || +-------------------------- McCullough Peaks || +-| +|+--------------------------| +-------------------------- Whistle Creek || | || +---------------------------- Dry Creek || |+-------------------------------------------------------- Cold Springs Trap | +--------------------------------------------------------- Muskrat Basin ----+----+----+----+----+----+----+----+----+----+----+---+.76 .80 .84 .88 .92 .96 1.00
All genetic testing is now done by DNA microsatellite loci.
DNA testing allows the use of pulled mane or tail hairs as samples.
DNA results are analyzed in essentially the same way as blood protein data.
N Ho He Fis Ae TNV MNA Ra %RaAugusta Mountains NV 29 0.77 0.756 -0.018 4.28 79 6.58 16 0.202
Cleveland Bay 47 0.610 0.627 0.027 2.93 59 4.92 16 0.271American Saddlebred 576 0.740 0.745 0.007 4.25 102 8.50 42 0.412Andalusian 52 0.722 0.753 0.041 4.26 79 6.58 21 0.266Arabian 47 0.660 0.727 0.092 3.81 86 7.17 30 0.349Exmoor Pony 98 0.535 0.627 0.146 2.87 66 5.50 21 0.318Friesian 304 0.545 0.539 -0.011 2.56 70 5.83 28 0.400Irish Draught 135 0.802 0.799 -0.003 5.19 102 8.50 28 0.275Morgan Horse 64 0.715 0.746 0.041 4.19 92 7.67 33 0.359Suffolk Punch 57 0.683 0.711 0.038 3.88 71 5.92 13 0.183Tennessee Walker 60 0.666 0.693 0.038 3.66 87 7.25 34 0.391Thoroughbred 1195 0.734 0.726 -0.011 3.92 69 5.75 18 0.261
Feral Horse Mean 126 0.716 0.710 -0.012 3.87 72.68 6.06 17 0.222Standard Deviation 0.056 0.059 0.071 0.66 13.02 1.09 7.98 0.088Minimum 0.496 0.489 -0.284 2.15 37 3.08 0 0Maximum 0.815 0.798 0.133 5.25 96 8.00 33 0.400Domestic Horse Mean 80 0.710 0.720 0.012 4.01 80.88 6.74 23.8 0.283Standard Deviation 0.078 0.071 0.086 0.74 16.79 1.40 10.1 0.082Minimum 0.347 0.394 -0.312 1.78 26 2.17 0 0Maximum 0.822 0.799 0.211 5.30 119 9.92 55 0.462
SELLE FRANCAIS
THOROUGHBRED
HOLSTEIN
HANOVARIAN
TRAKEHNER
QUARTER HORSE
MORGAN HORSE
STANDARDBRED
MOUNTAIN PLEASURE HORSE
ROCKY MOUNTAIN HORSE
AMERICAN SADDLEBRED
AUGUSTA MOUNTAIN
TENNESSEE WALKER
ARGENTINE CRIOLLO
BRAZILIAN CRIOLLO
CHILEAN CRIOLLO
VENEZUELAN CRIOLLO
CAMPOLINO
MANGALARGA MARCHADOR
PANTANEIRO
PUERTO RICAN PASO FINO
PERUVIAN PASO
COLOMBIAN PASO FINO
GARANNO
ARABIAN
KURD
TURKOMAN
CASPIAN PONY
ANDALUSIAN
AKHAL TEKE
LUSITANO
DALES PONY
FELL PONY
SHIRE
NEW FOREST PONY
HAFLINGER
PERCHERON
SUFFOLK PUNCH
ICELANDIC
NORWEGIAN
SHETLAND PONY
AMERICAN CREAM DRAFT
EXMOOR PONY
POLISH PRIMITIVE
SIMILARITY .60 .64 .68 .72 .76 .80 .84 .88 .92 .96 1.00 +----+----+----+----+----+----+----+----+----+----+----+----+----+----+----+----+----+----+----+----+ *************************** CALLAGHAN austin *************** * *************************** HALL CREEK **** * * ********************************* CALLAGHAN east * * ****** *** **** ********************************* GRASS VALLEY * * * * * ************************************** BALD MOUNTAIN ** * ** ******************************************** RODEO CREEK ** ** ************************************** STONE CABIN *********** ** ************************************** NELLIS ** *** ******************************************* NEW PASS/RAVENSWOOD ******* ** ******************************************* SAULSBURY *** ************************************************** BEATYS BUTTE OR ***** * ************************************************** MILLER MTN SWC * * * ************************************************** SOUTH SHOSONE ** ****************************************************** SAND SPRINGS EAST **** * ****************************************************** ROCKY HILLS * * * ****************************************************** SHAWAVE MOUNTAINS ** ********************************************************* AUGUSTA MOUNTAINS ** ********************************************************* MARVEL GAP SWC *** * ********************************************************* ROBERTS MOUNTAIN * * ** ********************************************************* VIRGINIA RANGE ** ** ***************************************************** FISH CREEK ******** **** ***************************************************** LITTLE OWYHEE TWIN * * * * ************************************************** GRANITE RANGE2 * * ******** * **** ************************************************** GRANITE RANGE1 * * * ********************************************************* SILVER PEAK * *************************************************************** REVEILLE ** ** ************************************** BLACK ROCK WEST ** ********* ** *********** ************************************** BLACK ROCK EAST ** * * ********** ********************************************** WARM SPRINGS CANYON ** * ** ******************************************************** CHIMNEY CREEK ** ** ************************************************* JOHNNIE ** ************** **** ************************************************* WHEELER PASS ** * ** ************************************************************** RED ROCKS ** ** ****************************************** DOLLY VARDEN ** ********* ** ***** ****************************************** ANTELOPE VALLEY *** * * ************** ************************************************** SPRUCE PEQUOP ** * ** ****************************************************** GOSHUTE ** ** *************************************************************** LITTLE OWYHEE FAIRB ***** * *************************************************************** LITTLE OWYHEE LAKE * ** *********************************************************** LITTLE FISH LAKE ********** ** *********************************************************** SEVEN MILE ** **** **************************************************************** CALICO MOUNTAINS * ***** * * **************************************************************** CATNIP HERD * * *** * ****************************************************** SNOW STORMS CASTLE * * *************** * * ****************************************************** LITTLE HUMBOLT * * ***** ********************************************************************** BUFFALO HILLS * * * * ************************************** PAYMASTER * * ******************************* *** ***** ************************************** MONTEZUMA PEAK * * * * * ******************************************************************** STILLWATER ** * ** **************************************************************************** LAHANTON RESERVOIR ** ******************************************************************************** ROCK CREEK ** ** ************************************************************************** PINENUT MOUNTAIN *********** * * ************************************************************************** DESATOYA MOUNTAIN * * * ******************************************************************************** JAKES WASH * ************************************************************************************ SNOW STORMS DRYHILL +----+----+----+----+----+----+----+----+----+----+----+----+----+----+----+----+----+----+----+----+ .60 .64 .68 .72 .76 .80 .84 .88 .92 .96 1.00
DNA loci give somewhat higher variability measures so are not directly comparable to protein loci.
Rank levels of variation are similar.Allelic measures of diversity are more
important for mSat loci.Overall DNA gives data that is as useful for
population genetic analysis as blood typing.
Over 100 population analyses were made using blood protein loci.
Some herds were tested more than one time.DNA testing was done on some herds
analyzed using blood proteins during transitional period for lab.
Have DNA data for ~180 herds, again, some tested more than once.
Burro testing is very similar to that for horses. The same mSat loci are used although not all work for burros.
Only have four domestic breeds to compare to.
Most burro herds show very low variability.
Population Ho He Fis Ae TNV Ar
Butte Valley .422 .496 .148 2.369 31 .22
Panamints .446 .465 .041 2.380 28 .27
Salin Valley .479 .518 .074 2.504 34 .23
Poitou Donkey .533 .515 -.036 2.501 42 37
Mammouth Jack .585 0602 .028 2.602 35 .37
Miniature Donkey .562 .623 .099 3.483 57 .40
Standard Donkey .539 .565 .046 2.900 40.6 .30
Domestic Mean .539 3565 .046 2.900 40.6 .30
Feral Mean .397 .445 .104 2.198 30.7 .20
Genetic variation measures.
********************************* Poitou * * *********************** Pannaments CA * **** **** * *********************** Butte Valley CA * * ***** * * * * *********************** Saline Valley CA * * * **** * **** * *************** Slate Range CA * * ********* ********* * *************** Centennial Ca * * * * * ****************************** Clark Mtn. CA * * * * *********** Picacho CA * * **************** * * * *********** Chocolate Mule CA * *********** *** * *********************** Sinbad UT * * **** * * *********************** Yuma 1 AZ * * * * ********************** Minniature * * ******** ***** * ***** ********************** Standard * * * * * * * ************ ***************************** Ossabaw GA * * * * * ********************************* Cibola/Trigo 1 AZ ****************************** * * * * ********************************* Mammoth Jack * * ************** * * ********************************* Sardinian ********** * * * * ***************************** Chemehuevi CA * * ********************** *** * ***************************** Park Moab CA * * * * * ******************************************************************************* Blue Wing NV ** * ** **************************************************************************************** Wikieup AZ ** ************************************************************************************************ Kingman AZ * * * * ********************************************************************************** Seven Tanks NV ** ********** ** ********************************************************************************** East Mohave CA **** * ************************************************************************************************* Ed's Camp Az *** * * * ************************************************************************************************* Yuma 2 AZ * * * *************************************************************************************************** Havasu AZ * ***************************************************************************************************** Cibola/Trigo 2 AZ
The majority of herds have moderate to high genetic variability.
This is probably due to the mixed origins of the herds.
About 18% of herds have variation levels that are low enough to be of concern. Most of these are just below that level.
Only about 3% have exceptionally low variation.
Horse Summary
Variation is usually correlated with population size.
Sometimes variation is high is small populations but this is due to recent reductions.
Most herds have not shown changes in variation levels between two or more sampling periods. This is probably due to not enough time having elapsed for a change to take place.
No large changes in variation level have been seen in any BLM herd to this point.