Neanderthal genes have been related to human disease. The human genome has been found to have up to 10 percent Neanderthal genes. The pyruvate dehydrogenase gene as well as those coding for MHC alleles are of Neanderthal origin. Neanderthal genes have been related to autism and autoimmune disease. There is high incidence of autism and Neanderthal anthropometry in the matrilineal and Dravidian language speaking nair community of Kerala. The autistic brain is comparable to the large-sized Neanderthal brain. Metabolic patterns were compared among the following groups: matrilineal nairs, non nairs, autism, schizophrenia and systemic diseases to find out a pattern of Neanderthal metabolism. The aim of the study aimed to detect fossilized Neanderthal matrilineal societies and new Neanderthal hybrids in relation to civilisational diseases. Four groups, 25 numbers in each group were chosen for the study—the autistic population diagnosed according to DSM criteria, the normal nair population, the normal non-nair population and civilisational disease group including metabolic syndrome x, alzheimer’s disease, cancer, schizophrenia and multiple sclerosis. Archaeal cholesterol catabolism as well as PDH activity, glycolytic pathway, the GABA shunt, porphyrins, homocysteine and ammonia metabolism were studied to find out a pattern of Neanderthal metabolism. Autistic metabolonomic patterns include low pyruvate dehydrogenase activity, mitochondrial dysfunction, GABA shunt, Warburg glycolytic phenotype, hyperammonemia, hyperhomocysteinemia, porphyria, low cholesterol/bile acid levels and a similar pattern is seen in the normal nair population of Kerala. Neanderthal metabolonomic patterns include a low efficiency PDH activity. Autistic and matrilineal societies like nair can be considered as remnants of the Neanderthals. The autistic and nair population have increased cytochrome F420 activity suggestive of endosymbiotic archaeal growth resulting in PDH and mitochondrial suppression. The increased archaeal digoxin synthesis later on shuts down the metabolic machinery the neuronal and other tissue cells and the human cells and tissues including the brain are taken over by an atavistic actinidic colony network. This leads onto a Neanderthal hybrid zombie syndrome. The increased archaeal growth in ice age conditions contributed to the neanderthal evolution and similar endosymbiotic archaeal growth related to global warming leads to neanderthalisation of homo sapiens. The autistic and neanderthalic metabolonomic patterns are also seen in civilisational diseases like syndrome X, schizophrenia, cancer, multiple sclerosis and alzheimer’s disease. The results suggest neanderthalisation of the humans due to global warming and archaeal growth. The Neanderthalisation of the human species is the basis of the global autistic, schizophrenic and civilisational disease epidemic—epidemic Neanderthal hybrid zombie syndrome. The matrilineal societies are fossilized Neanderthal remnants and neoneanderthal hybrids contribute to civilisational diseases.

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