Indian male lineages:
It is becoming increasingly clear that there is no major contribution from Arab lands and from Mediterranean countries(Anatolia, Turkey) to Indian male pre-historic population.
None of the Indian Y-lineages F,H,R(xR1b),G,J2, C(xC3) have exclusive distribution beyond Iran,Afghanistan. Arab lands are characterized by heavy presence J1 and E3b, Mediterranean again E3b and R1b.
I don't know where it is. But if it's in Russian lands or in Balkans or in Anatolia, then the Indo-Aryans who moved to India were in fact secondary or tertiary IE people.
Russian lands: We should find I, R1b and N3(benchmark is Brahmin population). Status: Till date not observed.
Balkans: Again I. Status: Till date not observed.
Anatolia: R1b, E3b. Status: Till date not observed.
The Indo-Aryan Urheimat:
The region which became linguistically and culturally IE but not much genetically is certainly beyond IVC areas. But not much far away. In my opinion, the pre-historic Indians that came in contact with primary or secondary IE people must be in Afghanistan.
The connection between Chitpavan Brahmins and Burushos:
Almost all the Brahmin communities show in South and East show a greater presence of R1a1. A feature characteristic of present day Pakistan and North-West of India. However, Gaekwad et al. 2005 study had an interesting distribution of Haplogroups among Chitpavans.
While other castes had R1a1 in great number, this particular caste had R1a*. Ibra, a man from Meluhha whose spirit lives in distant Arctic tundra lands, has communicated that lack of funds might have stopped them from testing for marker M17(which identifies R1a1) for those samples. A highly plausible scenario(as rest of the later studies didn't find any R1a* and R1a1 frequency increased dramatically) but I still prefer to think that they in fact couldn't detect M17 in those samples. In my opinion, after M207 they tested for M17 directly as other intermediate Haplogroups are hardly observed. Therefore, I have grouped all those R1a* under R* and compared with them Burushos(From Sengupta et al. 2006 study).
R* 20% 31%
L3 15% 17%
R2 15% 11%
H 15% 14%
R1a1 10% 5%
C3 5% 3%
G5 5% 1.5%(F*)
J2 5%(J2b) 12%(J2a)
K2 5% 3%
There are many theories about Chitpavans' migration to Maharashtra. In my opinion, the one that says they were from Afghanistan(or Northern Pakistan) has a higher weight. The isolated Burushos might have escaped Indo-Europeanization. However, Indo-Europeanization of North India might have helped from Indo-Aryanization of sparsely populated area first and then gradually moving to denser areas.
The indigenous Aryans:
Both Sengupta et al. 2006. and the present Thanseem et al. 2006 studies have observed that Haplogroup H1(M52) though the biggest, has the lowest dieversity of all the major Haplogroups of India. Haplogroup H*(M69) clan is generally considered the earliest settlers(after coastal migration lineages of C and D) of India. However, it looks like this clan was restricted for a long time when R1a1, R2, J2 and L started populating the subcontinent.
However, Haplogroup H1 then suddenly had a greater fecundity success, probably due agriculture and may also be due to tribal kingdoms taking shape all over Central-South India in historical times. This clan though too old to be identifed with either Aryan or Dravidian speaking populations(though could be Austro-Asiatic along with R2 and J2b) but evidently speaking both Dravidian and Indo-Aryan by historical times, most likely killed one expansion of Dravidian languaes to Central and West. It has been observed that the rise of Maratha tribes(whose biggest lineage is H1) halted the spread of Kannada language in Maharashtra during medieval period.
Expansion of various lineages:
C, D(extinct) -> coastal migration -> negligible in India -> language unknown
F*,H,R*, R2 -> Iran/Afghanistan -> Austro-Asiatic, Burushaski
H, R2, R1a1, J2, G, L -> Pakistan, North-East India -> Dravidian, Austro-Asiatic, Burushaski
R*, R1a1, R2,H, J2, L -> Pakistan, Northern India -> Indo-Aryan
R2 -> Andhra Pradesh -> Dravidian
H1 -> Maharashtra -> Indo-Aryan
Expansion of various languages:
South-East Asia-> Ganges-> Indus river
2. Dravidian :
Indus river -> West coastal India -> Krishna, Godavari in Central India(SD-II)
Indus river -> South-West coastal India-> Kaveri(SD-I)
Afghanistan-> Indus river -> Ganges-> Srilanka
Ganges -> West coastal India-> Krishna/Narmada river