GENOME EVOLUTION
okike mkpụrụ ndụ ihe nketa
Mgbakọ genome dị elu na-egosipụta njirimara genomic rye na mkpụrụ ndụ ihe nketa dị mkpa
PacBio |Illumina |Bionano Optical Map |Hi-C Genome Mgbakọ |Maapụ mkpụrụ ndụ ihe nketa |Nhọrọ nhọrọ |RNA-Seq |ISO-seq |SLAF-seq
Teknụzụ Biomarker nyere nkwado teknụzụ na usoro Pacbio, usoro Hi-C na nyocha data n'ime ọmụmụ ihe a.
Isi ihe
1.The mbụ chromosomal-larịị elu àgwà Rye genome nwetara, nke nwere otu chromosome size ibu karịa 1 Gb.
2.Tụnyere Tu, Aet na Hv genome, a hụrụ ihe omume LTR-RT pụrụ iche na nso nso a na Rye genome, bụ nke na-ahụ maka ịgbatị rye genome size.
3.The divergence n'etiti rye na diploid wheats mere mgbe nkewa nke ọka bali si ọka wit, na divergence oge maka abụọ omume bụ mkpokọta 9.6 na 15 MYA.
FT mkpụrụ ndụ ihe nketa phosphorylation nwere ike ịchịkwa àgwà isi mmalite na rye.
4.Nyocha nchacha a na-ahọrọ na-egosi itinye aka na ScID1 nwere ike ime n'usoro ụbọchị isiokwu na nhọrọ nke puru omume site na domestication na rye.
ndabere
ndabere
Rye bụ nri bara uru na ihe ọkụkụ, ihe mkpụrụ ndụ ihe nketa dị mkpa maka nkwalite ọka wit na triticale, yana ihe dị mkpa maka ọmụmụ ihe ọmụmụ genomics nke ọma na ahịhịa.Weining rye, ụdị okooko osisi mbụ a na-akọ na China, bụ ihe pụtara ìhè n'ihi na ọ na-eguzogide oke dị iche iche nke mildew powdery na nchara nchara.Iji ghọta mkpụrụ ndụ ihe nketa na mkpụrụ ndụ ihe ndabere nke àgwà rye elite yana ịkwalite ọmụmụ ihe ọmụmụ genomic na ọmụmụ na rye na ihe ọkụkụ ndị metụtara ya, anyị na-edepụta ma nyochaa genome nke Weining rye.
Mmezu
Rye Genome
Emebere genome nke Rye site na ijikọ PacBio SMRT agụ, usoro Illumina dị mkpụmkpụ, yana ndị sitere na njide chromatin conformation (Hi-C), eserese mkpụrụ ndụ ihe nketa, na nyocha BioNano.Contigs a gbakọtara (7.74 Gb) ruru 98.47% nke nha genome e mere atụmatụ (7.86 Gb), yana 93.67% nke contigs (7.25 Gb) ekenyere na chromosomes asaa.Ihe ndị na-emegharị ugboro ugboro mejupụtara 90.31% nke genome agbakọtara.
Rye Genome
Maapụ njikọ mkpụrụ ndụ ihe nketa (WJ) mepụtara site na iji osisi 295 F2 sitere na ngafe nke ala rye abụọ (Weining × Jingzhou)
Hi-C maapụ kọntaktị nke chromosomes asaa gbakọtara Weining rye (1R – 7R)
Nhazi n'etiti chromosomes asaa gbakọtara nke Weining rye na otu njikọ rye asaa mepụtara site na iji ọnụ ọgụgụ Lo7 x Lo255 RIL.
Achọpụtara ọnụ ahịa LTR Assembly Index (LAI) nke Rye genome bụ 18.42 na 1,393 (96.74%) nke mkpụrụ ndụ BUSCO 1,440 echekwara nke ọma. na mpaghara genic.Ngụkọta mkpụrụ ndụ ihe nketa protein 86,991, gụnyere 45,596 mkpụrụ ndụ ntụkwasị obi dị elu (HC) na mkpụrụ ndụ ihe nketa 41,395 dị ala (LC).
2. Nyocha nke TE
Nyocha nke TE.Ngụkọta 6.99 Gb, na-anọchite anya 90.31% nke mgbakọ Weining, ka edepụtara dị ka TEs, nke gụnyere ihe 2,671,941 nke ezinụlọ 537.Ọdịnaya TE a dị elu karịa nke akọwara mbụ maka Ta (84.70%), Tu (81.42%), Aet (84.40%), WEW (82.20%), ma ọ bụ Hv (80.80%).The ogologo ọnụ ikwugharị retrotransposons (LTR-RTs), gụnyere Gypsy, Copia na-adịghị nkewa RT ọcha, bụ ndị kasị TEs, na 1 nwere 84.49% nke nkọwa TE ọdịnaya na 76.29 % nke gbakọtara Weining genome;Ntugharị DNA nke CACTA bụ TE nke abụọ kachasị ukwuu, mejupụtara 11.68% nke ọdịnaya TE akọwapụtara yana 10.55% nke mkpokọta Weining genome.
Analysis nke transposon ọcha nke rye
Weining rye nwere oke dị elu nke ntinye nke LTR-RT na nso nso a nwere ọnụ ọgụgụ kachasị elu pụtara gburugburu 0.5 nde afọ gara aga (MYA), nke bụ nke kachasị ọhụrụ n'ime ụdị anọ ahụ;elu nke ọzọ, mere ihe dịka 1.7 MYA, bụ okenye ma hụkwa na ọka bali.N'ọkwa nnukwu ezinụlọ, ihe mgbawa nke Copia n'oge na-adịbeghị anya na Weining rye na 0.3 MYA ka ahụrụ, ebe nkwalite nke Gypsy RT na-akpụzi usoro nkesa bimodal nke LTR-RT gbawara agbawa.
3. Nchọpụta evolushọn rye genome na chromosome syntenies
Ọdịiche dị n'etiti rye na diploid wheats mere mgbe nkewapụ nke ọka bali na ọka wit, na oge dị iche iche maka ihe omume abụọ ahụ bụ ihe dịka 9.6 na 15 MYA, n'otu n'otu.1R, 2R, 3R bụ chromosomes nke ọka 1, 2 na 3, n'otu n'otu.Achọpụtara 4R, 5R, 6R, 7R nwere nnukwu ngwakọta na akụkụ.
4. Nyocha nke mkpụrụ ndụ ihe nketa na mmetụta ha na starch biosynthesis genes
N'ụzọ doro anya, ọnụọgụ nke mkpụrụ ndụ ihe nketa na-emegharị emegharị (TDGs) na mkpụrụ ndụ ihe nketa na-emechi anya (PDGs) nke Weining rye dị elu karịa nke a chọtara maka Tu, Aet, Hv, Bd na Os.Mkpụrụ ndụ ihe nketa atụgharịrị (TrDGs) dịkwa ọtụtụ karịa ndị ahụ akọwapụtara maka Tu na Aet.Mgbasa rye genome na-esonyere ọnụ ọgụgụ dị elu nke mkpụrụ ndụ ihe nketa.Mmụba TE na-agbawa na rye nwere ike butere ọnụ ọgụgụ TrDG dị elu.
Nnyocha evolushọn na chromosome synteny nke rye genome
Nyocha nke mkpụrụ ndụ ihe nketa rye na mmetụta ha na ụdị mkpụrụ ndụ ihe nketa starch biosynthesis metụtara (SBRGs)
5. Dissection nke rye mkpụrụ nchekwa protein (SSP) gene loci
Achọpụtala chromosomal loci anọ (Sec-1 ruo Sec-4) na-akọwapụta rye SSP na 1R ma ọ bụ 2R.Mkpụrụ ndụ ihe nketa α-gliadin malitere na nso nso a na ọka wit na ụdị ndị nwere njikọ chiri anya mgbe ọdịiche nke ọka wit si na rye gasịrị.
6. Nyocha nke ihe odide ederede (TF) na mkpụrụ ndụ ihe nketa na-eguzogide ọrịa
Nyocha nke rye secalin loci
Weining rye nwere ọtụtụ mkpụrụ ndụ ihe nketa na-egbochi ọrịa metụtara (DRA) (1,989, Data mgbakwunye 3) karịa Tu (1,621), Aet (1,758), Hv (1,508), Bd (1,178), Os (1,575), na A (1,836). ), B (1,728) na D (1,888) subgenomes nke ọka wit nkịtị.
7. Nyochaa njirimara okwu mkpụrụ ndụ ihe nketa jikọtara ya na njirimara isi mmalite
Mkpụrụ ndụ FT abụọ nwere okwu dị elu dị elu n'okpuru ọnọdụ ogologo ụbọchị, ScFT1 na ScFT2, ka edepụtara na mgbakọ genome Weining.Achọpụtara ihe fọdụrụ amino acid abụọ nke ScFT2 (S76 na T132) phosphorylation na iwetulata njikwa oge.
Njirimara okwu mmepe na mkpụrụ ndụ ihe nketa jikọtara ya na isi mmalite nke Weining rye
8. Ngwuputa mpaghara chromosomal na loci nwere ike itinye aka n'ime ụlọ rye
A na-eji ngụkọta nke 123,647 SNP mee nyocha nyocha nke ọma n'etiti rye akọpụtara na S.vavilovii.11 akara nzacha nhọrọ achọpụtara site na ndetu mbelata (DRI), ndezi ndozi (FST) na usoro XP-CLR.Achọpụtara ScID1 nwere ike itinye aka na nhazi ụbọchị isiokwu.
Nchọpụta na nyocha nke mpaghara chromosomal na loci nwere ike ịmetụta ụlọ rye
Ntụaka
Li GW et al.Mgbakọ genome dị elu na-egosipụta njirimara genomic rye na mkpụrụ ndụ ihe nketa dị mkpa.Genetics okike (2021)
Akụkọ na isi ihe Ebumnuche iji Biomarker Teknụzụ kekọrịta ikpe kachasị ọhụrụ na-aga nke ọma, na-ewepụta mmezu sayensị ọhụụ yana usoro ama ama etinyere n'oge ọmụmụ ihe ahụ.
Oge nzipu: Jan-05-2022