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      Massive cranium from Harbin in northeastern China establishes a new Middle Pleistocene human lineage

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          Abstract

          It has recently become clear that several human lineages coexisted with Homo sapiens during the late Middle and Late Pleistocene. Here, we report an archaic human fossil that throws new light on debates concerning the diversification of the Homo genus and the origin of H. sapiens. The fossil was recovered in Harbin city in northeastern China, with a minimum uranium-series age of 146 ka. This cranium is one of the best preserved Middle Pleistocene human fossils. Its massive size, with a large cranial capacity (∼1,420 mL) falling in the range of modern humans, is combined with a mosaic of primitive and derived characters. It differs from all the other named Homo species by presenting a combination of features, such as long and low cranial vault, a wide and low face, large and almost square orbits, gently curved but massively developed supraorbital torus, flat and low cheekbones with a shallow canine fossa, and a shallow palate with thick alveolar bone supporting very large molars. The excellent preservation of the Harbin cranium advances our understanding of several less-complete late Middle Pleistocene fossils from China, which have been interpreted as local evolutionary intermediates between the earlier species Homo erectus and later H. sapiens. Phylogenetic analyses based on parsimony criteria and Bayesian tip-dating suggest that the Harbin cranium and some other Middle Pleistocene human fossils from China, such as those from Dali and Xiahe, form a third East Asian lineage, which is a part of the sister group of the H. sapiens lineage. Our analyses of such morphologically distinctive archaic human lineages from Asia, Europe, and Africa suggest that the diversification of the Homo genus may have had a much deeper timescale than previously presumed. Sympatric isolation of small populations combined with stochastic long-distance dispersals is the best fitting biogeographical model for interpreting the evolution of the Homo genus.

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          • More than 100,000 years ago, several human species coexisted in Asia, Europe, and Africa

          • A completely preserved fossil human cranium discovered in the Harbin area provides critical evidence for understanding the evolution of humans and the origin of our species

          • The Harbin cranium has a large cranial capacity (∼1,420 mL) falling in the range of modern humans, but is combined with a mosaic of primitive and derived characters

          • Our comprehensive phylogenetic analyses suggest that the Harbin cranium represents a new sister lineage for Homo sapiens

          • A multi-directional “shuttle dispersal model” is more likely to explain the complex phylogenetic connections among African and Eurasian Homo species/populations

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          MrBayes 3.2: Efficient Bayesian Phylogenetic Inference and Model Choice Across a Large Model Space

          Since its introduction in 2001, MrBayes has grown in popularity as a software package for Bayesian phylogenetic inference using Markov chain Monte Carlo (MCMC) methods. With this note, we announce the release of version 3.2, a major upgrade to the latest official release presented in 2003. The new version provides convergence diagnostics and allows multiple analyses to be run in parallel with convergence progress monitored on the fly. The introduction of new proposals and automatic optimization of tuning parameters has improved convergence for many problems. The new version also sports significantly faster likelihood calculations through streaming single-instruction-multiple-data extensions (SSE) and support of the BEAGLE library, allowing likelihood calculations to be delegated to graphics processing units (GPUs) on compatible hardware. Speedup factors range from around 2 with SSE code to more than 50 with BEAGLE for codon problems. Checkpointing across all models allows long runs to be completed even when an analysis is prematurely terminated. New models include relaxed clocks, dating, model averaging across time-reversible substitution models, and support for hard, negative, and partial (backbone) tree constraints. Inference of species trees from gene trees is supported by full incorporation of the Bayesian estimation of species trees (BEST) algorithms. Marginal model likelihoods for Bayes factor tests can be estimated accurately across the entire model space using the stepping stone method. The new version provides more output options than previously, including samples of ancestral states, site rates, site d N /d S rations, branch rates, and node dates. A wide range of statistics on tree parameters can also be output for visualization in FigTree and compatible software.
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            The complete genome sequence of a Neandertal from the Altai Mountains

            We present a high-quality genome sequence of a Neandertal woman from Siberia. We show that her parents were related at the level of half siblings and that mating among close relatives was common among her recent ancestors. We also sequenced the genome of a Neandertal from the Caucasus to low coverage. An analysis of the relationships and population history of available archaic genomes and 25 present-day human genomes shows that several gene flow events occurred among Neandertals, Denisovans and early modern humans, possibly including gene flow into Denisovans from an unknown archaic group. Thus, interbreeding, albeit of low magnitude, occurred among many hominin groups in the Late Pleistocene. In addition, the high quality Neandertal genome allows us to establish a definitive list of substitutions that became fixed in modern humans after their separation from the ancestors of Neandertals and Denisovans.
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              TNT, a free program for phylogenetic analysis

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                Author and article information

                Contributors
                Journal
                Innovation (N Y)
                Innovation (N Y)
                The Innovation
                Elsevier
                2666-6758
                28 August 2021
                28 August 2021
                28 August 2021
                : 2
                : 3
                : 100130
                Affiliations
                [1 ]Hebei GEO University, Shijiazhuang 050031, China
                [2 ]CAS Center for Excellence in Life and Paleoenvironment, Chinese Academy of Science, Beijing 100044, China
                [3 ]CAS Center for Excellence in Tibetan Plateau Earth Sciences, Chinese Academy of Science, Beijing 100104, China
                [4 ]University of Chinese Academy of Sciences, Beijing 100049, China
                [5 ]Key Laboratory of Virtual Geographic Environment, Ministry of Education, Nanjing Normal University, Nanjing 210023, China
                [6 ]China Geo-Environmental Monitoring Institute, Beijing 100081, China
                [7 ]Key Laboratory of Earth and Planetary Physics, Innovation Academy for Earth Science, Chinese Academy of Sciences, Beijing 100029, China
                [8 ]Australian Research Centre for Human Evolution, Griffith University, Nathan, QLD, Australia
                [9 ]Research School of Earth Sciences, The Australian National University, Canberra, ACT, Australia
                [10 ]Centre for Human Evolution Research, Department of Earth Sciences, Natural History Museum, London, UK
                Author notes
                []Corresponding author jiqiang@ 123456hgu.edu.cn
                [∗∗ ]Corresponding author nixijun@ 123456hgu.edu.cn
                [∗∗∗ ]Corresponding author c.stringer@ 123456nhm.ac.uk
                Article
                S2666-6758(21)00055-2 100130
                10.1016/j.xinn.2021.100130
                8454562
                34557770
                1a8ad724-20d5-4228-a684-f4b289ca2fc3
                © 2021 The Author(s)

                This is an open access article under the CC BY-NC-ND license (http://creativecommons.org/licenses/by-nc-nd/4.0/).

                History
                : 10 May 2021
                : 4 June 2021
                Categories
                Article

                human phylogeny,human cranium fossil,human dispersal,human diversification

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