Malliya gounder Palanichamy - Academia.edu (original) (raw)

Papers by Malliya gounder Palanichamy

To resolve the phylogeny of the autochthonous mitochondrial DNA (mtDNA) haplogroups of India and ... more To resolve the phylogeny of the autochthonous mitochondrial DNA (mtDNA) haplogroups of India and determine the relationship between the Indian and western Eurasian mtDNA pools more precisely, a diverse subset of 75 macrohaplogroup N lineages was chosen for complete sequencing from a collection of 1800 control-region sequences sampled across India. We identified five new autochthonous haplogroups (R7, R8, R30, R31, and N5) and fully characterized the autochthonous haplogroups (R5, R6, N1d, U2a, U2b, and U2c) that were previously described only by first hypervariable segment (HVS-I) sequencing and coding-region restriction-fragment–length polymor-phism analysis. Our findings demonstrate that the Indian mtDNA pool, even when restricted to macrohaplogroup N, harbors at least as many deepest-branching lineages as the western Eurasian mtDNA pool. Moreover, the distribution of the earliest branches within haplogroups M, N, and R across Eurasia and Oceania provides additional evidence for a...

Bookmarks Related papers MentionsView impact

Background: Tracing the genetic origin of central European farmer N1a lineages can provide a uniq... more Background: Tracing the genetic origin of central European farmer N1a lineages can provide a unique opportunity to assess the patterns of the farming technology spread into central Europe in the human prehistory. Here, we have chosen twelve N1a samples from modern populations which are most similar with the farmer N1a types and performed the complete mitochondrial DNA genome sequencing analysis. To assess the genetic and phylogeographic relationship, we performed a detailed survey of modern published N1a types from Eurasian and African populations. Results: The geographic origin and expansion of farmer lineages related N1a subclades have been deduced from combined analysis of 19 complete sequences with 166 N1a haplotypes. The phylogeographic analysis revealed that the central European farmer lineages have originated from different sources: from eastern Europe, local central Europe, and from the Near East via southern Europe. Conclusions: The results obtained emphasize that the arriv...

Bookmarks Related papers MentionsView impact

The Indian Journal of Medical Research, 2011

Background & objectives: Recently, a significantly higher ratio of nucleotide changes in the mtDN... more Background & objectives: Recently, a significantly higher ratio of nucleotide changes in the mtDNA genes: COII, ATPase 6, ATPase 8, ND2, ND3, ND4, and ND5 was reported in spermatozoa from populations of infertile Indian men, compared suggesting that screening for mtDNA mutations could provide insight into the aetiology of male infertility. In this study, we examined the published data and found serious errors in the original acquisition and analysis of the data. Methods: The mtDNA data associated with male infertility in Indian populations were retrieved from the published sources. The mtDNA substitution values of infertile and control groups were evaluated using phylogenetic methods and previously published mtDNA phylogenies. Results: Most of the mtDNA polymorphisms reported as significantly correlated with infertility were more commonly found in general populations. Further, our analysis showed that some of the mtDNA substitutions were erroneously overestimated in the infertile gr...

Bookmarks Related papers MentionsView impact

... Trans. Am. Fish. Soc. 32, 357371. She, JX; Autem, M.; Kotoulas, G.; Pasteur, N.; Bonhomme, F... more ... Trans. Am. Fish. Soc. 32, 357371. She, JX; Autem, M.; Kotoulas, G.; Pasteur, N.; Bonhomme, F., 1987: Multivariate analysis of genetic exchanges between Solea aegyptiaca and Solea senegalensis (Teleosts, Soleidae). Biol. J. Linn. Soc. 32, 357371. ...

Bookmarks Related papers MentionsView impact

Hum Genet, 2003

To study the mitochondrial DNA (mtDNA) polymorphisms in a total of 232 individuals from five ethn... more To study the mitochondrial DNA (mtDNA) polymorphisms in a total of 232 individuals from five ethnic populations (Daur, n=45; Ewenki, n=47; Korean, n=48; Mongolian, n=48; Oroqen, n=44) in northern China, we analyzed the control region sequences and typed for a number of characteristic mutations in coding regions (especially the region 14576-16047), by direct sequencing or restriction-fragment-length-polymorphism (RFLP) analysis. With the exception of 14 individuals belonging to the European-specific haplogroups R2, H, J, and T, the mtDNAs considered could be assigned into the East Asian-specific haplogroups described recently. The polymorphisms in cytochrome b sequence were found to be very informative for defining or supporting the haplogroups status of East Asian mtDNAs in addition to the reported regions 10171-10659 and 14055-14590 in our previous study. The haplogroup distribution frequencies varied in the five ethnic populations, but in general they all harbored a large amount of north-prevalent haplogroups, such as D, G, C, and Z, and thus were in agreement with their ethnohistory of northern origin. The two populations (Ewenki and Oroqen) with small population census also show concordant features in their matrilineal genetic structures, with lower genetic diversities observed.

Bookmarks Related papers MentionsView impact

The Indian Journal of Medical Research, Oct 1, 2011

Recently, a significantly higher ratio of nucleotide changes in the mtDNA genes: COII, ATPase 6, ... more Recently, a significantly higher ratio of nucleotide changes in the mtDNA genes: COII, ATPase 6, ATPase 8, ND2, ND3, ND4, and ND5 was reported in spermatozoa from populations of infertile Indian men, compared suggesting that screening for mtDNA mutations could provide insight into the aetiology of male infertility. In this study, we examined the published data and found serious errors in the original acquisition and analysis of the data. The mtDNA data associated with male infertility in Indian populations were retrieved from the published sources. The mtDNA substitution values of infertile and control groups were evaluated using phylogenetic methods and previously published mtDNA phylogenies. Most of the mtDNA polymorphisms reported as significantly correlated with infertility were more commonly found in general populations. Further, our analysis showed that some of the mtDNA substitutions were erroneously overestimated in the infertile groups and underestimated in the control groups, and vice-versa. Contrary to earlier claims, our analysis demonstrated no significant association between the mtDNA polymorphisms and male infertility in these studies. Further, these errors in the published data impune the usefulness of mitochondrial molecular analyses in male infertility diagnosis.

Bookmarks Related papers MentionsView impact

There is no indication from the previous mtDNA studies that west Eurasian-specific subclades have... more There is no indication from the previous mtDNA studies that west Eurasian-specific subclades have evolved within India and played a role in the spread of languages and the origins of the caste system. To address these issues, we have screened 14,198 individuals (4208 from this study) and analyzed 112 mitogenomes (41 new sequences) to trace west Eurasian maternal ancestry. This has led to the identification of two autochthonous subhaplogroups—HV14a1 and U1a1a4, which are likely to have originated in the Dravidian-speaking populations approximately 10.5–17.9 thousand years ago (kya). The carriers of these maternal lineages might have settled in South India during the time of the spread of the Dravidian language. In addition to this, we have identified several subsets of autochthonous U7 lineages, including U7a1, U7a2b, U7a3, U7a6, U7a7, and U7c, which seem to have
originated particularly in the higher-ranked caste populations
in relatively recent times (2.6–8.0 kya with an average
of 5.7 kya). These lineages have provided crucial clues
to the differentiation of the caste system that has occurred
during the recent past and possibly, this might have been
influenced by the Indo-Aryan migration. The remaining
west Eurasian lineages observed in the higher-ranked caste
groups, like the Brahmins, were found to cluster with populations who possibly arrived from west Asia during more
recent times.

Bookmarks Related papers MentionsView impact

Domestic chickens (Gallus gallus domesticus) fulfill various roles ranging from food and entertai... more Domestic chickens (Gallus gallus domesticus) fulfill various roles ranging from food and entertainment to religion and
ornamentation. To survey its genetic diversity and trace the history of domestication, we investigated a total of 4938
mitochondrial DNA (mtDNA) fragments including 2843 previously published and 2095 de novo units from 2044 domestic
chickens and 51 red junglefowl (Gallus gallus). To obtain the highest possible level of molecular resolution, 50 representative
samples were further selected for total mtDNA genome sequencing. A fine-gained mtDNA phylogeny was investigated by
defining haplogroups A–I and W–Z. Common haplogroups A–G were shared by domestic chickens and red junglefowl.
Rare haplogroups H–I and W–Z were specific to domestic chickens and red junglefowl, respectively. We re-evaluated the global
mtDNA profiles of chickens. The geographic distribution for each of major haplogroups was examined. Our results revealed
new complexities of history in chicken domestication because in the phylogeny lineages from the red junglefowl were mingled
with those of the domestic chickens. Several local domestication events in South Asia, Southwest China and Southeast Asia
were identified. The assessment of chicken mtDNA data also facilitated our understanding about the Austronesian settlement
in the Pacific.

Bookmarks Related papers MentionsView impact

For the identification of population genetic markers in rohu Labeo rohita, universal mitochondria... more For the identification of population genetic markers in rohu Labeo rohita, universal
mitochondrial DNA primers of ND1/16s rRNA and ND5/6 genes were
tested and found to amplify particular fragments. Restriction digestion of the
amplified products showed polymorphism suggesting its potential as a genetic
marker for population studies.

Bookmarks Related papers MentionsView impact

Successful cross-species amplification of microsatellites of a particular locus in Labeo rohita u... more Successful cross-species amplification of microsatellites of a particular locus in
Labeo rohita using primers of specific microsatellite loci from Catla catla is
reported. This is the first report on amplification of microsatellites in Labeo
rohita. The locus was found to be polymorphic (p<0.95) in the samples from the
two rivers, Satlej and Rapti belonging to different river systems of Indus and
Ganges rivers and a total of 4 alleles were found. This validates the utility of the
microsatellite locus for screening genetic variability in wild stocks of L. rohita.

Bookmarks Related papers MentionsView impact

Recent analyses of ancient Mesopotamian mitochondrial genomes have suggested a genetic link betwe... more Recent analyses of ancient Mesopotamian mitochondrial genomes have suggested a genetic link between the Indian
subcontinent and Mesopotamian civilization. There is no consensus on the origin of the ancient Mesopotamians. They may
be descendants of migrants, who founded regional Mesopotamian groups like that of Terqa or they may be merchants who
were involved in trans Mesopotamia trade. To identify the Indian source population showing linkage to the ancient
Mesopotamians, we screened a total of 15,751 mitochondrial DNAs (11,432 from the literature and 4,319 from this study)
representing all major populations of India. Our results although suggest that south India (Tamil Nadu) and northeast India
served as the source of the ancient Mesopotamian mtDNA gene pool, mtDNA of these ancient Mesopotamians probably
contributed by Tamil merchants who were involved in the Indo-Roman trade.

Bookmarks Related papers MentionsView impact

The Indian Journal of Medical Research, 2011

Bookmarks Related papers MentionsView impact

Hum Genet, 2003

Bookmarks Related papers MentionsView impact

The Indian Journal of Medical Research, Oct 1, 2011

Bookmarks Related papers MentionsView impact