GWAS
Title: Yese-genome resequencing inoratidza Brassica napus mavambo uye genetic loci inobatanidzwa mukuvandudza kwayo.
Journal: Nature Communications
NGS |WGS |Resequencing |GWAS |Transcriptome |RNAseq |Brassica napus |Evolution |Kuita zvemumba
Muchidzidzo ichi, Biomarker Technologies yakapa masevhisi paNGS kutevedzana, pamwe nerutsigiro rwehunyanzvi pakuongorora bioinformatics pakuteedzera data.
Background
Brassica napus(rapeseed) chirimwa chakakosha mhodzi yemafuta uye muenzaniso wakanaka wekuongorora maitiro epolyploid speciation, shanduko uye sarudzo.Nekudaro, kunyangwe mhuka dzemusango kana vapi vepamba vaive madzitateguru evabereki uye majini akabatsira mukuchengetwa nekuvandudzwa kwembeu dzechibharo hazvisati zvazivikanwa.
Zvishandiso uye nzira
Zvekushandisa:588B. napusMuchidzidzo ichi mune vanhu 466, 102 vekuEurope, gumi nevatatu vekuNorth America, uye 7 kubva kuAustralia.Kubva pakukura tsika zvinyorwa, zvinhu izvi zvakakamurwa kuita matatu ecotypes;chirimo (86 accessions), chando (74 accessions), uye semi-chando (428 accessions).
Sequencing:Avhareji ye approx.5× (kubva pa3.37× kusvika 7.71×)
Sequencing platform:Illumina Hiseq 4000
Kugadzirwa kwedata:4.03 Tb yakachena data
SNP kufona:BWA + GATK.5,294,158 SNPs uye 1,307,151 InDels yakawanikwa.
Results
Kwakabva B. napus
B. napusA subgenome yakabva kune tateguru weEuropean turnip.Chiitiko chekuyerera kwemajini kubva kuEurope turnip kuenda kuB. napus A subgenome yakaitika ~ 106-1170 makore apfuura.B. napusC subgenome inogona kunge yakashanduka kubva kumadzitateguru akajairwa emadzinza aya.Tateguru waB. napuskupatsanurwa kubva kumadzitateguru mana B. oleracea subspecies, neazvino gene anoyerera kupindaB. napus~108–898 makore apfuura.B. napusC subgenome ine mavambo akaoma kupfuura A Subgenome.Ibhodhoro rakasimba rakagadzirwa mune ese maviri subgenomes panguvaB. napusevolution.Nguva yechando uye semi-chandoB. napusecotypes akasiyana ~ makore makumi matanhatu apfuura, nepo chando uye chirimoB. napusdiverged ~ 416 makore apfuura, uye neoiri uye isina-oiri seedB. napusDivered ~ 277 makore apfuura.
Fig. 2 Population structure ye588 B. napus accessions uye 199 yeB. rapa accessions.
Mufananidzo 3 Chimiro chehuwandu hwe588 B. napus accessions uye 119 yeB. oleracea accessions
Sarudzo masaini uye Genome-wide mubatanidzwa zvidzidzo.
Munguva yekutanga yekuvandudza (FSI), mamwe maitiro akasiyana-siyana akarasika muB. napus C subgenome kupfuura muA subgenome.Kuderera kushoma kwemajini kwakaitika panguva yeFSI kupfuura panguva yechipiri nhanho yekuvandudza (SSI).Majini muSSI-yekusarudzwa chiratidzo matunhu akafumiswa mukushushikana kushivirira, kusimudzira uye metabolic nzira.60 loci yakanyatsobatanidzwa ne 10 inotarirwa maitiro, kusanganisira 5 ane chekuita negoho rembeu, 3 kusvika silique kureba, 4 kumafuta emukati, uye 48 kumhando yembeu yakaonekwa.
Fig. 4 Genome-wide scanning uye zvirevo zvematunhu akasarudzwa panguva yeSSI yeB. napus
Transcriptome analysis
RNAseq data ye11 tishu kubva kune yakakwira-oiri-yakawanda uye kaviri-yakaderera cultivar uye yakaderera-mafuta-inowanikwa uye kaviri-yakakwirira cultivar yakaonekwa magene ane hukama neglucosinolate biosynthetic process akanyanya kumiririrwa.
Fig. 5 Mhedziso yekutonga-nguva yemaruva pasi pesarudzo yekuvandudza ecotype yeB. napus
Kukurukurirana
Ichi chidzidzo chakapa sosi yakakosha yekunzwisisa mavambo uye nhoroondo yekuvandudzwa kweB. napusuye ichaita kuti kupatsanurwa kweiyo genetic base yeakakosha agronomic yakaoma maitiro.Iwo akakosha maSNPs ane hukama neakanaka akasiyana, masaini esarudzo uye majini emumiriri achabatsira zvakanyanya mune ramangwana, kunyanya mukuvandudza goho, mhando yembeu, mafuta emukati, uye kuchinjika kwechirimwa ichi chichangobva kuitika cheallopolyploid nehama dzayo.
Reference
Yese-genome resequencing inoratidza Brassica napus mavambo uye genetic loci inobatanidzwa mukuvandudza kwayo[J].Nature Communications, 2019, 10(1).
Nhau Nezvakakosha inovavarira kugovera nyaya dzichangoburwa dzakabudirira neBiomarker Technologies, kutora budiriro yesainzi pamwe nemaitiro ane mukurumbira akashandiswa panguva yekudzidza.
Nguva yekutumira: Jan-05-2022