UKUVELA KWEGENOME
imfuzo yendalo
Indibano ye-genome ekumgangatho ophezulu iqaqambisa iimpawu ze-rye genomic kunye nofuzo olubalulekileyo ngokwezolimo
PacBio |Ilumina |Imephu ye-Bionano ye-Optical |INdibano ye-Hi-C Genome |Imephu yemfuzo |Ukutshayela Okukhethiweyo |I-RNA-Seq |ISO-seq |I-SLAF-seq
I-Biomarker Technologies ibonelele ngenkxaso yobugcisa ngokulandelelana kwePacbio, ukulandelelana kwe-Hi-C kunye nohlalutyo lwedatha kolu cwaningo.
Iimbalasane
1.I-chromosomal-level yokuqala ekumgangatho ophezulu we-Rye genome yafunyanwa, enobukhulu bechromosome enye enkulu kune-1 Gb.
I-2.Xa kuthelekiswa ne-Tu, i-Aet kunye ne-Hv genome, iziganeko ezikhethekileyo ze-LTR-RT zakutshanje zabonwa kwi-Rye genome, eyayijongene nokwandiswa kwe-rye genome size.
3. Ukwahlukana phakathi kwe-rye kunye nengqolowa ye-diploid kwenzeka emva kokuhlukana kwebhali kwingqolowa, kunye namaxesha okuhlukana kwezi ziganeko ezimbini malunga ne-9.6 kunye ne-15 MYA.
I-FT genes phosphorylation inokulawula inqaku lesihloko sokuqala kwirye.
4. Uhlalutyo olukhethiweyo lokutshayela lubonisa ukubandakanyeka okunokwenzeka kweScID1 kulawulo lomhla wesihloko kunye nokukhethwa kwayo okunokwenzeka ngokufuya i-rye.
Imvelaphi
Imvelaphi
I-Rye sisityalo esixabisekileyo sokutya kunye nefula, isiseko sofuzo esibalulekileyo sokuphucula ingqolowa kunye ne-triticale, kunye nemathiriyeli eyimfuneko kwizifundo ezisebenzayo zokuthelekisa i-genomics kwingca.I-Weining rye, uhlobo olusandul' ukudumba olulinywa e-China, lubalasele ngenxa yokumelana nohlobo olubanzi lokungunda kunye ne-stripe rust.Ukuqonda isiseko sofuzo kunye nemolekyuli yeempawu ze-rye elite kunye nokukhuthaza izifundo ze-genomic kunye nokuzalanisa kwi-rye kunye nezityalo ezinxulumeneyo, apha silandelelanisa kwaye sahlalutya igenome ye-Weining rye.
Impumelelo
Rye Genome
I-genome ye-Rye yakhiwa ngokudibanisa i-PacBio SMRT ifundeka, ukulandelelana kwe-Illumina okufutshane, kunye nezo zisuka kwi-chromatin conformation capture (Hi-C), imephu yemfuzo, kunye nohlalutyo lwe-BioNano.I-contigs edibeneyo (i-7.74 Gb) yenza i-98.47% yobungakanani obuqikelelweyo be-genome (7.86 Gb), kunye ne-93.67% ye-contigs (7.25 Gb) eyabelwe iichromosomes ezisixhenxe.Izinto eziphindaphindayo zenze i-90.31% yegenome edityanisiweyo.
Rye Genome
Imephu yonxibelelaniso lwemfuzo (WJ) iphuhliswe kusetyenziswa izityalo ezingama-295 F2 ezithatyathwe ekunqumleni imigca emibini yerye (Weining × Jingzhou)
Imephu yoqhagamshelwano ye-Hi-C yeekhromozomi ezisixhenxe ezidityanisiweyo ze-Weining rye (1R – 7R)
Ulungelelwaniso phakathi kweekhromozomi ezisixhenxe ezidityanisiweyo ze-Weining rye kunye namaqela asixhenxe onxibelelaniso ereyi aphuhliswe kusetyenziswa i-Lo7 x Lo255 RIL yabemi.
Ixabiso le-LTR Assembly Index (LAI) le-Rye genome lifunyenwe liyi-18.42 kunye ne-1,393 (96.74%) ye-1,440 ye-BUSCO yofuzo egcinwe kakhulu kwaye ichongiwe. kunye nemimandla yegeni.Iyonke i-86,991 ye-protein-coding genes, kubandakanywa i-45,596 high-confidence (HC) genes kunye ne-41,395 ye-low-confidence (LC) genes yaqikelelwa.
2. Uhlalutyo lwee-TEs
Uhlalutyo lwee-TEs.Iyonke i-6.99 Gb, emele i-90.31% yendibano ye-Weining, yachazwa njenge-TEs, equka izinto eziyi-2,671,941 zeentsapho ezingama-537.Lo mxholo we-TE ubuphezulu ngokucacileyo kunalowo bekuxelwe ngaphambili kwi-Ta (84.70%), iTu (81.42%), i-Aet (84.40%), i-WEW (82.20%), okanye i-Hv (80.80%).I-terminal ende yokuphinda i-retrotransposons (i-LTR-RTs), kubandakanywa i-Gypsy, i-Copia kunye nezinto ze-RT ezingachazwanga, zaziyi-TEs ephambili, kwaye i-1 ithathe i-84.49% yesiqulatho se-TE esicacileyo kunye ne-76.29% ye-Genome ye-Weining edibeneyo;I-CACTA DNA transposons yayiyeyesibini i-TEs eninzi kakhulu, ibandakanya i-11.68% yomxholo we-TE ochaziweyo kunye ne-10.55 % ye-Weining genome edibeneyo.
Uhlalutyo lwezinto ze-transposon ze-rye
I-Weining rye yayinomlinganiselo ophezulu ngokuthelekisayo wofakelo lwakutsha nje lwe-LTR-RTs kunye nencopho yokukhulisa yavela malunga ne-0.5 yezigidi zeminyaka eyadlulayo (MYA), eyayiyeyona yakutshanje phakathi kweentlobo ezine;enye incopho, yenzeke malunga ne-1.7 MYA, yayindala kwaye yabonwa kwibhali.Kwinqanaba le-superfamily, ukugqabhuka kwamva nje kwezinto ze-Copia kwi-Weining rye kwi-0.3 MYA kwafunyanwa, ngelixa ulwandiso lwe-Gypsy RTs lulolonge kakhulu ipateni yokuhanjiswa kwe-bimodal ye-LTR-RT yokuqhuma kwamandla.
3. Uphando lwe-rye genome evolution kunye ne-chromosome syntenies
Ukwahlukana phakathi kwe-rye kunye nengqolowa ye-diploid kwenzeka emva kokuhlukana kwebhali kwingqolowa, kunye namaxesha okuhlukana kwezi ziganeko zibini malunga ne-9.6 kunye ne-15 MYA, ngokulandelanayo.I-1R, i-2R, i-3R yayiyi-collinear ngokupheleleyo kunye namaqela e-1, i-2 kunye ne-3 ye-chromosomes yengqolowa, ngokulandelanayo.I-4R, 5R, 6R, 7R yafunyanwa ikhona i-fusions enkulu kunye namacandelo.
4. Uhlalutyo lokuphindaphinda kwemfuza kunye nefuthe labo kwi-starch biosynthesis genes
Okuqaphelekayo, amanani emfuza ephindiweyo (TDGs) kunye neejini eziphindaphindwe ngokusondeleyo (PDGs) ze-Weining rye zombini zaziphezulu kunezo zifunyenwe kwi-Tu, Aet, Hv, Bd kunye ne-Os.Iijini eziphindiweyo eziphindiweyo (TrDGs) nazo zazininzi kunezo zifunyenwe ngokukodwa kwi-Tu kunye ne-Aet.Ukwandiswa kwe-rye genome kukhatshwa ngamanani aphezulu ophindo lwemfuza.Ukugqabhuka kwe-TE okwandisiweyo kwirye kusenokuba kukhokelele kwinani eliphezulu le-TrDGs.
Uhlalutyo lwe-evolutionary kunye ne-chromosome synteny ye-rye genome
Uhlahlelo lokuphindaphindwa kofuzo lwe-rye kunye nempembelelo yazo kwiintlobo ngeentlobo ze-starch biosynthesis ezinxulumene nofuzo (SBRGs)
5. Ukukhutshwa kweprotein yokugcina imbewu yerye (SSP) gene loci
I-loci emine ye-chromosomal (i-Sec-1 ukuya kwi-Sec-4) ecacisa i-rye SSPs ichongiwe kwi-1R okanye i-2R.Ufuzo lwe-α-gliadin luye lwavela kutsha nje kwingqolowa nakwientlobo ezinxulumene ngokusondeleyo emva kokuhlukana kwengqolowa kwirye.
6. Uvavanyo lwe-transcription factor (TF) kunye nejene lokumelana nezifo
Uhlalutyo lwe-rye secalin loci
I-Weining rye yayinoxhathiso oluninzi olunxulumene nezifo ezinxulumene (DRA) genes (1,989, iData eyoNgezelelweyo 3) kuneTu (1,621), i-Aet (1,758), i-Hv (1,508), i-Bd (1,178), i-Os (1,575), kunye ne-A (1,836) ), B (1,728) kunye no-D (1,888) i-subgenomes yengqolowa eqhelekileyo.
7. Uphando lweempawu zokuchazwa kofuzo ezinxulumene nophawu lwesihloko sakwangoko
Iijini ezimbini ze-FT ezinembonakalo ephezulu ngokwentelekiso phantsi kweemeko zemini ezinde, iScFT1 kunye neScFT2, zachazwa kwindibano ye-Weining genome.Iintsalela ze-amino acid ezimbini ze-ScFT2 (S76 kunye ne-T132) phosphorylation zifunyenwe ubudlelwane kunye nokunciphisa ixesha lokulawula.
Uphuhliso kunye neempawu zokubonakaliswa kofuzo ezinxulumene nesihloko sokuqala se-Weining rye
8. Ukwembiwa kwemimandla yechromosomal kunye neloci enokuthi ibandakanyeke ekufuyweni kwe-rye
Iyonke i-123,647 ye-SNP yasetyenziselwa ukwenza uhlalutyo olukhethekileyo lokutshayela phakathi kwe-rye elinyiweyo kunye ne-S. vavilovii.Iimpawu ze-11 ezikhethiweyo zokutshayela ezichongiweyo ngesalathisi sokunciphisa (i-DRI), i-fixation index (FST) kunye ne-XP-CLR indlela.I-ScID1 ifunyenwe inxaxheba enokwenzeka kulawulo lomhla wesihloko.
Ukuchongwa kunye nohlalutyo lwemimandla ye-chromosomal kunye ne-loci enokuthi inxulumene nokufuywa kwe-rye
Isalathiso
U-Li GW et al.Indibano ye-genome ekumgangatho ophezulu iqaqambisa iimpawu ze-rye genomic kunye nofuzo olubalulekileyo ngokwezolimo.Imfuzo yendalo (2021)
Iindaba neembalasane ijolise ekwabelaneni ngamatyala aphumeleleyo amva nje kunye neBiomarker Technologies, ukubamba impumelelo yesayensi enoveli kunye nobuchule obubalaseleyo obusetyenzisiweyo ngexesha lokufunda.
Ixesha lokuposa: Jan-05-2022