利用生命之树与生物学大数据探索被子植物多样性.pdf

1、Miao Sun|孙苗Explore the Angiosperm Diversity Using the Tree of Life and Biological Big Data利用生命利用生命之树与生物学大数据探索被子植物多样性之树与生物学大数据探索被子植物多样性12025.8.24-8.26|哈尔滨第九届全国生物多样性信息学研讨会OutlinesTree of LifeBiological Big DataApplications of Tree of Life(My research cases)2生命之树Tree of Life“Family tree”tree-like topol

2、ogies to describe the relationshipsPhylogenetic tree系统发育树 1.Tree of LifeSoltis&Soltis,20193 Root/unroot;branchingpattern;common ancestors Extinct taxa not include(fossil)Various equivalent styles Bipartition tree;complex network Hypotheses,not definitive factsTree of Life4Trend of Sequence Generatio

3、nSanger seq.Genomic dataWang et al.（2024）A few loci-Genome skimming A few loci-Genome skimming-Transcriptomes Transcriptomes-WGSWGSPlastid genePlastid gene/MMitochondrialitochondrial(maternalmaternal)-Nuclear genes-Nuclear genes (biparental(biparental)5Dawn of the Nuclear PhylogenomicsJohnson et al.

4、（2019）Zuntini etZuntini et al.al.（20242024）Leebens-Mack et al.（2019）6Mega-phylogeny3,646,220-taxon tree of life of seed plant3,646,220-taxon tree of life of seed plantPhylogenomics(1KP,PAFTOL)PyPHLAWDPyPHLAWDClustersWCVPNCBISun et al.(unpublished)7phylogenomic backbonebased on genomes and transcript

5、omes2.Biological Big DataBig data is often characterised by the 3Vs:the large volume volume(数据体量)the wide variety variety(数据类型)the velocity velocity(产生速度)Biological big data cater to the needs of biological research,including-omics;traits,spatial data,species names,etc NLP related.ComputationcostDat

6、a incomplete Data HeterogeneityDatastorageUncertaintyScalabilityOptimizationChallengesin biological big dataSmall data is for people;Big data is for machines.893.Applications of Tree of Life3.Applications of Tree of LifeTree of Life is a PlatformConservation and BiodiversityClimate changeEcosystemCr