整合生物系统学

课程编码：0710I0D01015H 英文名称：Integrative Systematic Biology 课时：51 学分：3.00 课程属性：一级学科核心课 主讲教师：朱朝东等

This course offers an introduction to Integrative Systematic Biology, generally including four sections. The first section covers topics aiming at the foundation of systematic biology – species classification, such as traditional morphological taxonomy, morphometrics, graphic analysis, and molecular species delimitation. The second section then targets the systematics of classified species via both molecular sequences and morphological characters. With this section, students will be knowledgeable of molecular models accounting for molecular evolution, advances in phylogenomic research, methods for estimating evolutionary timescales of the Tree of Life, and so on. The third section focuses on advanced topics including ancestral trait reconstruction, species diversify and diversification rates, co-evolution between species groups, evolutionary hypotheses, and so on. The fourth section provides demos which would teach students important techniques in this field, such as R programming, statistics analyses, and tree reconstruction.

Basic knowledge in general biology and molecular biology.

第一章 Systematics Foundations 3学时
第1节 Evolutionary Biology
第2节 Tree of Life
第3节 Classification and Phylogeny
第4节 Biodiversity Macroevolution
第二章 Molecular Systematics 3学时
第1节 Species Delimitation
第2节 Species Interactions
第三章 Molecular Phylogenetics and Phylogenomics 3学时
第1节 Phylogenetics Trees
第2节 Tree Thinking
第3节 Molecular Phylogenetics
第4节 Phylogenetic Data
第5节 Phylogenetic Methods
第6节 Phylogenomics
第7节 Gene Tree and Species Tree
第四章 Species Theories and Molecular Species Delimitation 3学时
第1节 Available Species Concepts
第2节 Hypotheses of Speciation
第3节 Controversies of 'species'
第4节 Recent developments of the species concept
第5节 Molecular Species Delimitation and Case Studies
第五章 Student Presentation 3学时
第1节 Student Presentation
第六章 Molecular Ecology Background 3学时
第1节 Molecular Markers
第2节 DNA Taxonomy and DNA Barcoding
第3节 Metabarcoding
第4节 Genetics in Biogeography
第七章 Applied DNA Barcoding 3学时
第1节 Phylogenetics for Molecular Ecology
第2节 Integrating Omics with DNA Barcodes
第3节 Multi-Faceted Molecular Profiling
第八章 Phylogeography and Conservation 3学时
第1节 Case Studies
第九章 Student Presentation 3学时
第1节 Student Presentation
第十章 Classification and the Tree of Life 3学时
第1节 Macroevolution Basics
第2节 Plant Evolution
第3节 Animal Evolution
第4节 Human Evolution
第十一章 Molecular Clock and Estimating Evolutionary Timescales 3学时
第1节 Bayesian Phylogenetic Analysis
第2节 Markov Chain Monte Carlo Sampling
第3节 The Molecular Evolutionary Clock
第4节 Estimating Evolutionary Timescales
第5节 Framework of Bayesian Molecular Clock Dating
第6节 Molecular Clock Dating with BEAST 2
第十二章 Q&A or Lab Tour 3学时
第1节 Q&A or Lab Tour
第十三章 Final Examination 4学时
第1节 Final Examination

Prof. ZHU Chao-Dong, Dr. LUO A-Rong, Dr. Douglas CHESTERS