First of all, Kevin, we are essentially in agreement on a number of these issues.You are correct about the Doron Behar paper.The other biggies: "The Y Chromosome Pool of Jews as Part of Genetic Landscape of the Middle East," by Nebel; "Founding Mothers of Jewish Communities: Geographically Separate Jewish Groups were Independently Founded by Very Few Female Ancestors," by Mark Thomas.The most instructive paper on haplogroups J and E to have been recently published: "Origin, Diffusion, and Differentiation of Y-Chromosome Haplogroups E and J: Inferences on the Neolithization of Europe and Later Migratory Events in the Mediterranean Area," by Ornella Semino. Finally, a wonderful paper on haplogroups in Anatolia:" Excavating Y-chromosome Haplotypes Strata in Anatolia," by Cengiz Cinnioglu.
I also suggest regading the paper "The Jews of Ciechanowiec," by Eliezar Leoni, available at JewishGen, regarding Khazarian place names in Poland.
There is little to nothing available on Haplogroup Q, except in relation to Native Americans research, who are overwhelming haplogroups Q3, a derivative of haplogroup Q.This haplogroup appears to be restricted to Ashkenazi (rather than Sephardic) Jews, so as far as I know, this group didn't originate in ancient Israel.
I don't know what the scholars or rabbis are saying about the DNA evidence, but this kind of stuff doesn't mix well with spiritual principles, so I'd be very wary if they are mixing them.The Jews today are the spiritual inheritors of the ancient Israelities and that should be their focus, not a genetic connection to the ancient Israelites (which is there, as we've all noted, but so is a lot of other ancestry).
As for the archaeological data, I was refering to your paper, "Are Russian Jews Descended from the Khazars? A Reassessment Based Upon the Latest Historical, Archaeological, Linguistic, and Genetic Evidence."Examining your information on Hungary, here is just one quote: "Even as late as 1309 a Council of the Hungarian clergy at Pressburg forbade Catholics to intermarry with those people described as Khazars, and their decision received paper confirmation in 1346." Citing to Douglas Dunlops book, "The Khazars," in "The Dark Ages," ed. Roth & Levine (Rutgers University Press, 1966).By the way, a fellow researcher friend of mine who is examining haplogroups R1a and Q among Scandinavians believes Hungarians are approximately 3% haplogroup Q.It is also my belief that there are small percentages of haplogroup Q among Lithuanians, Polish and Russian peoples.However, it is Ashkenazi Jews who carry this haplogroup in it's greatest percentages in Europe.It is Behar who refers to it as "minor founding lineage" among the Ashkenazi.Frankly, it is obvious that R1a is also a "minor founding lineage," so I don't know why he doesn't refer to it as one as well.
There is disagreement among the researchers regarding how much of the Y-chromosome results (30%? 20%? 10%?) derive from a "non-Judean" source.I've looked at the data extensively, as well as contacted a number of Ashkenazim who have posted their results at YSearch, and I can tell you that 10% is an extreme underestimation of the numbers here.Behar doesn't even attempt to determine how much of haplogroup R1b and I the Ashkenazi have - I've spoken to many Jews who fall in these haplogroups.You've got to add up haplogroups Q, R1a1, R1b, I and possible G in the Ashkenazi to come up with the remaining percentages.
As for the MtDNA, the overwhelming vast majority of it appears to be European in origin, with the exception of MtDNA haplogroup N1b and possibly some of the H results that match the CRS.I don't know the percentages on this, but will try to find them for you.I also appears from the MtDNA evidence that at approximately 1/3 of the Askenazi population is related through their female lineages, due to the extremely small founder effect they have discovered.