GENOME EVOLUTION, PANGENOME
Pan-genome yog dab tsi?
Cov ntaub ntawv pov thawj qhia tau tias qhov sib txawv ntawm cov kab sib txawv ntawm ib hom tuaj yeem loj heev.Ib qho genome nyob deb ntawm qhov txaus kom tau txais tag nrho cov duab ntawm cov ntaub ntawv keeb kwm ntawm ib hom.Lub hom phiaj ntawm Pan-genome txoj kev tshawb fawb yog kom tau txais ntau daim duab genomic ntawm ib hom thiab txiav txim siab qhov kev sib raug zoo ntawm tus cwj pwm thiab cov kab lis kev cai los ntawm kev ua cov genome de novo los ua ke ntawm ntau hom kab mob, uas tso cai rau kev sib sib zog nqus thiab dav ntawm cov kev hloov pauv.
Trends of Pan-genome Study
Daim duab 1 Cov qauv ntawm cov ntaub ntawv tshawb fawb luam tawm ntawm Pan-genome.
Nco tseg: Daim duab qhia txog qhov tshwm sim ntawm kev noj "pan-genome" raws li lo lus tseem ceeb los tshawb nrhiav cov npe ntawm cov ntawv luam tawm hauv Nature, Cell thiab Science series phau ntawv xov xwm
a.Cov ntawv nyeem los ntawm ntau cov qauv raug ua raws li kev siv thiab cov tsis sib haum xeeb tau sib sau ua ke rau hauv cov kab mob tshiab.Los ntawm kev ntxiv cov tshiab contigs rau thawj qhov kev siv ib ntus, kev siv pangenome tuaj yeem tsim.Cov cheeb tsam Dispensable tau txiav txim siab raws li daim ntawv qhia tag nrho rov qab mus rau pangenome.
b.De novo sib sau ua ke ntawm cov genomes ntawm ntau yam accessions tso cai rau tag nrho cov genome alignment le caag los txheeb xyuas cov dispensable genomic cheeb tsam.
c.Lub pan-genome graph tuaj yeem tsim los ntawm tag nrho cov genome alignments lossis los ntawm de novo graph sib dhos, uas zoo khaws cov ntaub ntawv sib txawv ntawm cov cheeb tsam uas tsis tuaj yeem ua raws li qhov tshwj xeeb ntawm daim duab.
Yuav tsim Pan-genome li cas?
Daim duab 2 Kev sib piv ntawm pan-genome mus kom ze1
a.Cov ntawv nyeem los ntawm ntau cov qauv raug ua raws li kev siv thiab cov tsis sib haum xeeb tau sib sau ua ke rau hauv cov kab mob tshiab.Los ntawm kev ntxiv cov tshiab contigs rau thawj qhov kev siv ib ntus, kev siv pangenome tuaj yeem tsim.Cov cheeb tsam Dispensable tau txiav txim siab raws li daim ntawv qhia tag nrho rov qab mus rau pangenome.
b.De novo sib sau ua ke ntawm cov genomes ntawm ntau yam accessions tso cai rau tag nrho cov genome alignment le caag los txheeb xyuas cov dispensable genomic cheeb tsam.
c.Lub pan-genome graph tuaj yeem tsim los ntawm tag nrho cov genome alignments lossis los ntawm de novo graph sib dhos, uas zoo khaws cov ntaub ntawv sib txawv ntawm cov cheeb tsam uas tsis tuaj yeem ua raws li qhov tshwj xeeb ntawm daim duab.
Tsis ntev los no luam tawm Pan-genomes
● Rape pan-genomes2
● Txiv lws suav pan-genomes 3
● Rice Pan -genome4
● Sunflower Pan-genome5
● Soybean Pan-genome 6
● Rice Pan-genome7
● Barley Pan-genome8
● Nplej Pan-genome9
● Sorghum Pan-genome10
● Phytoplankton Pan-genome11
Kev siv
1. Bayer PE, Golicz AA, Scheben A, Batley J, Edwards D. Cog pan-genomes yog cov ntaub ntawv tshiab.Nat Nroj tsuag.2020; 6(8):914-920.doi: 10.1038/s41477-020-0733-0 ib
2. Song JM, Guan Z, Hu J, et al.Yim qhov zoo tshaj plaws genomes qhia pan-genome architecture thiab ecotype sib txawv ntawm Brassica napus.Nat Nroj tsuag.2020; 6(1):34-45.ua: 10.1038/s41477-019-0577-7
3. Gao L, Gonda I, Sun H, et al.Txiv lws suav pan-genome uncovers tshiab noob thiab ib tug tsawg allele regulating txiv hmab txiv ntoo tsw.Nat Genet.2019; 51(6): 1044-1051.doi: 10.1038/s41588-019-0410-2 ib
4. Zhao Q, Feng Q, Lu H, et al.Pan-genome tsom xam qhia txog qhov txawv ntawm genomic variation nyob rau hauv cultivated thiab qus nplej [tshaj tawm kho tshwm sim nyob rau hauv Nat Genet.2018 Aug; 50(8):1196].Nat Genet.2018; 50(2): 278-284.doi: 10.1038/s41588-018-0041-z
5. Hübner S, Bercovich N, Todesco M, et al.Sunflower pan-genome tsom xam qhia tau hais tias hybridization hloov cov noob ntsiab lus thiab cov kab mob tiv thaiv.Nat Nroj tsuag.2019; 5(1:54-62.doi: 10.1038/s41477-018-0329-0 ib
6. Liu Y., Du H., Li P., et al.Pan-Genome ntawm Tsiaj qus thiab Cultivated Soybeans.Cell.2020; 182(1):162-176.e13.doi: 10.1016/j.cell.2020.05.023
7. Qin P, Lu H, Du H, et al.Pan-genome tsom xam ntawm 33 genetic sib txawv nplej accessions qhia zais genomic variations [tshaj tawm online ua ntej luam tawm, 2021 Tej zaum 25].Cell.2021;S0092-8674(21)00581-X.doi: 10.1016/j.cell.2021.04.046
8. Jayakodi M, Padmarasu S, Haberer G, et al.Barley pan-genome nthuav tawm cov keeb kwm zais cia ntawm kev hloov pauv yug me nyuam.Xwm.2020; 588(7837):284-289.ua: 10.1038/s41586-020-2947-8
9. Walkowiak S, Gao L, Monat C, et al.Ntau hom nplej genomes qhia thoob ntiaj teb kev hloov pauv hauv kev yug me nyuam niaj hnub.Xwm.2020; 588(7837):277-283.doi: 10.1038/s41586-020-2961-x
10. Tao Y, Luo H, Xu J, et al.Kev hloov pauv loj hauv lub lauj kaub-genome ntawm cog qoob loo thiab qus sorghum [tshaj tawm online ua ntej luam tawm, 2021 Tsib Hlis 20].Nat Nroj tsuag.2021;10.1038 / s41477-021-00925-x.doi: 10.1038/s41477-021-00925-x
11. Fan X, Qiu H, Han W, et al.Phytoplankton pangenome nthuav tawm dav prokaryotic kab rov tav hloov pauv ntawm ntau lub zog.Sci Adv.2020; 6(18): ab0111.Luam tawm 2020 Plaub Hlis 29. doi: 10.1126/sciadv.aba0111
Post lub sij hawm: Jan-04-2022