Y chromosome haplotype analysis in purebred dogs

By | 23rd July 2019

Danika L. Bannasch,1 Michael J. Bannasch,2* Jeanne R. Ryun,1* Thomas R. Famula,3 Niels C. Pedersen4

1Department of Population Health and Reproduction, School of Veterinary Medicine, University of California, Davis, California 95616, USA 2Center for Companion Animal Health, School of Veterinary Medicine, University of California, Davis, California 95616, USA 3Department of Animal Science, University of California, Davis, California 95616, USA 4Department of Medicine and Epidemiology, School of Veterinary Medicine, University of California, Davis, California 95616, USA

Received: 4 August 2004 / Accepted: 14 January 2005


In order to evaluate the genetic structure of purebred dogs, six Y chromosome microsatellite markers were used to analyze DNA samples from 824 unrelated dogs from 50 recognized breeds. A relatively small number of haplotypes (67) were identified in this large sample set due to extensive sharing of haplotypes between breeds and low haplotype diversity within breeds. Fifteen breeds were characterized by a single Y chromosome haplotype. Breed-specific haplotypes were identified for 26 of the 50 breeds, and haplotype sharing between some breeds indicated a common history. A molecular variance analysis (AMOVA) demonstrated significant genetic variation across breeds (63.7%) and with geographic origin of the breeds (11.5%). A network analysis of the haplotypes revealed further relationships between the breeds as well as deep rooting of many of the breed-specific haplotypes, particularly among breeds of African origin.

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5 thoughts on “Y chromosome haplotype analysis in purebred dogs

  1. Daniëlle Termijn

    Hi Bitten,

    After reading above report I like to share some words.

    A interesting analyse caught my eye in relation to the common shared Y chromosome haplotype between the Pomeranian ( Spitze ) and the Dobermann.
    Probably I’m not the only one who had to think after reading this report at the one and only photo from Herr. K.F.L. Dobermann.
    We see him holding a Pomeranian, I only don’t know the sex of this dog.

    Yes, it can be a coincidence but it’s for sure remarkable in this matter. I have learned during life never say never ………
    I do think ( but you know this better) that the extreme in size wasn’t so huge.
    The time period we speak about was the breed still in wording and the first generations offsprings were much smaller then for example during WWII.

    Options as they described are probably all possible but that is just a guess.
    In the matter of IBS I have a questionmark and that is: because there isn’t found a trace (yet) of a commen ancestor did doesn’t mean there isn’t one.
    Is IBP also something to think about or is this not a relevant option.

    May I ask your first thought after this analyse and what is the exact value now in regard of the breed and breeding.

    Thank you inadvance.

  2. Bitten Post author

    hi Danielle
    think we have turned this page before – the Eurasian dogs /breeds of dogs shared Y Haplotypes – some dogs of small size others larger – the size at the time, was human handywork so to speak … whether this haplotype went back to the German Pinscher or the Stoppelhopser – it’s a share y chromosome, all depending on which combination we may refer to – we do not have the exact combinations of that time – we only have the historic notes and from the period 1880 to 1884, which is a very short time, compared to the time after this period of the breed.

    what I do find interesting is the findings of 0 diversity within the Y chromosome – which gives confirmation of what other researchers also have found, and the excessive use of Popular sires.

  3. Daniëlle Termijn

    Hi Bitten,

    Yes that is for sure a fact as the table also show us in the report.

    This is also a reason I think why the selection now for a sire is even more important and could it ever change or will it be always o diversity ?
    I mean with this if you stay within the population, is a change maybe spontaneously possible.
    Don’t know if we shared this in a earlier conversation but just ask again.

    Thank you for above reply.

    1. Bitten Post author

      Is the paternal heritage that important – are there not more important things to take into consideration … and how will you trace back to the paternal heritage – you cannot find them though DNA test – as a lot of these previous Sires may not have been popular dogs …. A lot of Sires are primary present through their offspring, and those offspring again might not have been popular lines …
      I know I have more than 1 Sire represented in my breeding’s – but you will not find them through DNA analysis – more and more people listen to “less knowledge people” who tells them that pedigrees are worthless – and the more they listen, the more diversity is lost. The same can be said with reference to maternal heritage – the moment we turn our back to the history of the breed, we loose everything …

      1. Daniëlle Termijn

        For sure are pedigrees still valuable and important, I will never assume that they are not needed anymore. Not only this but even more important is how te read them and try to implement it together with other breeding tools. This needs education and the will to take time and energy in it because it is a study.

        History Matters, it was and still is what makes the Dobermann breed for me a Dog of Distinction !

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