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      A review of the Cypriniform tribe Yunnanilini Prokofiev, 2010 from China, with an emphasis on five genera based on morphologies and complete mitochondrial genomes of some species

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          Abstract

          The loach tribe Yunnanilini from China is reviewed here using morphological characters and complete mitochondrial genomes of select species. Molecular data suggest that the tribe Yunnanilini is not monophyletic and can be divided into three clades. Species of the Yunnanilus nigromaculatus group form an independent genus and are placed in Eonemachilus. In the phylogenetic tree, Y. jinxiensis clusters with Paranemachilus genilepis, and Y. pulcherrimus clusters with Micronemacheilus cruciatus, indicating that Y. jinxiensis and Y. pulcherrimus belong to Paranemachilus and Micronemacheilus, respectively. Based on morphological data, Y. bailianensis and Y. longibarbatus are placed in Heminoemacheilus, while Y. jinxiensis and Y. pulcherrimus, are placed in Paranemachilus and Micronemacheilus, respectively. Yunnanilus niulanensis and Y. qujinensis are treated as junior synonyms of Eonemachilus caohaiensis. Eonemachilus, Micronemacheilus, and Yunnanilus are show short separation between anterior and posterior nostrils. The genera can be distinguished from each other by mouth structure, lateral line and cephalic lateral-line canals, and papillae on median part of both lips. The anterior and posterior nostrils of Heminoemacheilus and Paranemachilus are closely set. Paranemachilus and Micronemacheilus are distinguished by cheeks covered with scales and lips with papillae, respectively. Our phylogenetic tree and morphological characters support Traccatichthys as a valid genus, which can be distinguished from Micronemacheilus by anterior and posterior nostrils closely set (vs. clearly separated). Four species are placed in Traccatichthys.

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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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            A simplified protocol for routine total DNA isolation from salmonid fishes

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              The fishes of the inland waters of Southeast Asia: a catalogue and core bibliography of the fishes known to occur in freshwaters, mangroves and estuaries

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                Author and article information

                Contributors
                Journal
                Zool Res
                Zool Res
                ZR
                Zoological Research
                Science Press (16 Donghuangchenggen Beijie, Beijing 100717, China )
                2095-8137
                18 May 2021
                : 42
                : 3
                : 310-334
                Affiliations
                [1 ] Key Laboratory of Ecology of Rare and Endangered Species and Environmental Protection (Guangxi Normal University), Ministry of Education, Guilin, Guangxi 541004, China
                [2 ] Guangxi Key Laboratory of Rare and Endangered Animal Ecology, College of Life Science, Guangxi Normal University, Guilin, Guangxi 541004, China
                [3 ] Key Laboratory of Environment Change and Resources Use in Beibu Gulf, Nanning Normal University, Nanning, Guangxi 530001, China
                [4 ] Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, Yunnan 650223, China
                [5 ] Southeast Asia Biodiversity Research Institute, Chinese Academy of Sciences, Yezin, Nay Pyi Taw 05282, Myanmar
                [6 ] State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, The Innovative Academy of Seed Design, Chinese Academy of Sciences, Kunming, Yunnan 650223, China
                [7 ] Yunnan Key Laboratory of Plateau Fish Breeding, Yunnan Engineering Research Center for Plateau-Lake Health and Restoration, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, Yunnan 650223, China
                Author notes
                Article
                zr-42-3-310
                10.24272/j.issn.2095-8137.2020.229
                8175957
                33929106
                5ddf9a02-1cc1-48b1-99a2-6e5cf784a93e
                Editorial Office of Zoological Research, Kunming Institute of Zoology, Chinese Academy of Sciences

                This is an open-access article distributed under the terms of the Creative Commons Attribution Non-Commercial License ( http://creativecommons.org/licenses/by-nc/4.0/), which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

                History
                : 28 December 2020
                : 6 April 2021
                Funding
                This study was supported by the Middle-Aged and Young Teachers’ Basic Ability Promotion Project of Guangxi, China (2020KY02026), Key Laboratory of Ecology of Rare and Endangered Species and Environmental Protection (Guangxi Normal University), Ministry of Education (ERESEP2020Z22), Guangxi Key Laboratory of Rare and Endangered Animal Ecology, Guangxi Normal University (19A0104), Special Funds for Young Scholars of Taxonomy of the Chinese Academy of Sciences (ZSBR-011), National Natural Science Foundation of China (31872202, NSFC 31860600, U1702233, 31800454), Southeast Asia Biodiversity Research Institute, Chinese Academy of Sciences (Y4ZK111B01), Guangxi Natural Science Foundation (2017GXNSFFA198010), and Yunnan Provincial Science and Technology Department Foundation (202003AD150017, 2019BC002), and Sino BON-Inland Water Fish Diversity Observation Network
                Categories
                Article

                eonemachilus,heminoemacheilus,micronemacheilus, paranemachilus, yunnanilus,taxonomy

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