GENOME EVOLUTION
ʻano genetics
Hōʻike ka hui genome kiʻekiʻe i nā ʻano genomic rye a me nā genes koʻikoʻi agronomically
PacBio |Ilumina |Bionano Optical Map |Hi-C Genome Assembly |Palapala'āina Genetic |Koho koho |RNA-Seq |ISO-seq |SLAF-seq
Hāʻawi ʻo Biomarker Technologies i ke kākoʻo ʻenehana ma ke kaʻina ʻana o Pacbio, ke ʻano hi-C a me ka nānā ʻana i ka ʻikepili i kēia haʻawina.
Nā mea nui
1. Ua loaʻa ka chromosomal-level high quality Rye genome, nona ka nui o ka chromosome ma mua o 1 Gb.
2. Hoʻohālikelike ʻia me Tu, Aet a me Hv genome, ua ʻike ʻia kahi hanana LTR-RT hou loa ma Rye genome, nona ke kuleana no ka hoʻonui ʻana i ka nui o ka genome rye.
3. ʻO ka ʻokoʻa ma waena o ka rai a me ka palaoa diploid ma hope o ka hoʻokaʻawale ʻana o ka bale mai ka palaoa, me nā manawa like ʻole no nā hanana ʻelua ma kahi o 9.6 a me 15 MYA.
Hiki i ka FT genes phosphorylation ke hoʻomalu i ke ʻano poʻomanaʻo mua o ka rai.
4.Selective sweep analysis hōʻike i ke komo ʻana o ScID1 i ka hoʻoponopono ʻana i ka lā poʻomanaʻo a me kāna koho ʻana ma ka home i ka rai.
Kāpae
Kāpae
ʻO Rye kahi meaʻai waiwai a me nā meaʻai meaʻai, he kumu waiwai koʻikoʻi no ka hoʻomaikaʻi ʻana i ka palaoa a me ka triticale, a he mea koʻikoʻi no ka noiʻi ʻana i nā genomic hoʻohālikelike maikaʻi i nā mauʻu.ʻO Weining rye, kahi ʻano pua pua mua i mahi ʻia ma Kina, he mea ʻokoʻa loa ia ma muli o kona kūpaʻa ākea ākea i ka pauka a me ka ʻōpala.No ka hoʻomaopopo ʻana i ke kumu genetic a me ka molecular o nā ʻano elite rye a me ka hoʻolaha ʻana i nā haʻawina genomic a me ka hānau ʻana i ka rai a me nā mea kanu e pili ana, ma aneʻi mākou i hoʻonohonoho a loiloi i ka genome o Weining rai.
Nā mea i loaʻa
Rye Genome
Ua kūkulu ʻia ka genome Rye e ka hui ʻana i nā heluhelu ʻo PacBio SMRT, heluhelu pōkole ʻo Illumina sequencing, a me nā mea mai ka chromatin conformation capture (Hi-C), genetic mapping, a me BioNano analysis.ʻO nā contigs i hui ʻia (7.74 Gb) he 98.47% o ka nui genome i manaʻo ʻia (7.86 Gb), me 93.67% o nā contigs (7.25 Gb) i hāʻawi ʻia i ʻehiku chromosomes.ʻO 90.31% o ka genome i hui pū ʻia.
Rye Genome
Hoʻokumu ʻia ka palapala ʻāina hoʻohui Genetic (WJ) me ka hoʻohana ʻana i nā mea kanu 295 F2 i loaʻa mai ke keʻa ʻana o ʻelua mau ʻāina rai (Weining × Jingzhou)
ʻO ka palapala hoʻopili Hi-C o nā chromosomes Weining rye ʻehiku i hui ʻia (1R – 7R)
Hoʻonohonoho ʻia ma waena o nā chromosomes ʻehiku o Weining rye a me nā hui hoʻohui rai ʻehiku i kūkulu ʻia me ka hoʻohana ʻana i ka heluna kanaka Lo7 x Lo255 RIL.
Ua ʻike ʻia ka waiwai LTR Assembly Index (LAI) o ka Rye genome he 18.42 a me 1,393 (96.74%) o nā genes BUSCO 1,440 i mālama nui ʻia. a me nā ʻāpana genic.He 86,991 mau genes protein-coding, me 45,596 genes hilina'i ki'eki'e (HC) a me 41,395 genes low-confidence genes (LC) i wānana.
2. Ka Ike ana o na TE
Nānā i nā TEs.ʻO ka huina o 6.99 Gb, e hōʻike ana i ka 90.31% o ka hui ʻo Weining, i hōʻike ʻia ma ke ʻano he TEs, kahi i komo ai he 2,671,941 mau mea nona nā ʻohana 537.Ua ʻoi aku ka kiʻekiʻe o kēia ʻike TE ma mua o ka mea i hōʻike mua ʻia no Ta (84.70%), Tu (81.42%), Aet (84.40%), WEW (82.20%), a i ʻole Hv (80.80%).ʻO nā retrotransposons lōʻihi lōʻihi (LTR-RTs), me Gypsy, Copia a me nā mea RT unclassified, ʻo ia ka TEs mana, a 1ccupied 84.49% o ka helu TE annotated a me 76.29 % o ka genome Weining i hui ʻia;ʻO CACTA DNA transposon ka lua o ka nui loa o nā TEs, ʻo ia ka 11.68% o ka ʻike TE annotated a me 10.55% o ka genome Weining i hui ʻia.
Ka nānā 'ana i nā mea transposon o ka rai
Weining rye ua like ka nui o na hookomo hou ana o LTR-RTs me ka piko o ka hoonui i ikeia ma kahi o 0.5 miliona makahiki aku nei (MYA), oia ka mea hou loa i waena o na ano eha;ʻo ka piko ʻē aʻe, aia ma kahi o 1.7 MYA, ua ʻoi aku ka nui a ʻike ʻia ma ka bale.Ma ke kula ki'eki'e, ua 'ike 'ia ka pahū hou 'ana o nā mea Copia ma Weining rye ma 0.3 MYA, 'oiai na ka ho'onui 'ana o Gypsy RTs i ho'omake nui i ke kumu ho'ohālike bimodal o LTR-RT burst dynamics.
3. Ke noiʻi ʻana i ka ulu ʻana o ka genome rye a me nā syntenies chromosome
ʻO ka ʻokoʻa ma waena o ka rai a me ka palaoa diploid ma hope o ka hoʻokaʻawale ʻana o ka bale mai ka palaoa, me nā manawa like ʻole no nā hanana ʻelua ma kahi o 9.6 a me 15 MYA, kēlā me kēia.ʻO 1R, 2R, 3R i hui pū ʻia me nā pūʻulu 1, 2 a me 3 chromosomes o ka palaoa.Ua ʻike ʻia ʻo 4R, 5R, 6R, 7R aia nā hui nui a me nā ʻāpana.
4. Ka nānā 'ana i ka ho'ololi 'ana o nā gene a me ko lākou hopena i nā genes biosynthesis starch
ʻO ka mea nui, ʻoi aku ka kiʻekiʻe o ka helu o nā genes tandemly duplicated (TDGs) a me nā genes proximally duplicated (PDGs) o Weining rye ma mua o nā mea i loaʻa no Tu, Aet, Hv, Bd a me Os.Ua ʻoi aku ka nui o nā genes i hoʻololi ʻia (TrDGs) ma mua o nā mea i loaʻa kūikawā no Tu a me Aet.Hoʻopili pū ʻia ka hoʻonui ʻana i ka genome Rye me nā helu kiʻekiʻe o ka hoʻololi ʻana i nā gene.ʻO ka hoʻonui ʻia ʻana o ka TE i ka rai ua alakaʻi i kahi helu kiʻekiʻe o TrDGs.
ʻO ka loiloi evolutionary a me ka chromosome synteny analys of rye genome
Ka ʻike ʻana o ka hoʻololi ʻana o nā gene rye a me ko lākou hopena i nā ʻano like ʻole o ka starch biosynthesis related genes (SBRGs)
5. ʻO ka wehe ʻana o ka gene loci mālama hua rai (SSP).
ʻEhā chromosomal loci (Sec-1 a i ka Sec-4) e kuhikuhi ana i nā SSP rai i ʻike ʻia ma 1R a i ʻole 2R.ʻO nā genes α-gliadin i hoʻololi wale ʻia i ka palaoa a me nā ʻano pili pili ma hope o ka ʻokoʻa ʻana o ka palaoa mai ka rai.
6. Ka nānā 'ana i ka transcription factor (TF) a me nā genes kū'ē i ka ma'i
Ka nānā 'ana o ka rye secalin loci
Weining rye i ʻoi aku ka nui o nā genes e pili ana i ka maʻi e pili ana (DRA) (1,989, Supplementary Data 3) ma mua o Tu (1,621), Aet (1,758), Hv (1,508), Bd (1,178), Os (1,575), a me ka A (1,836). ), B (1,728) a me D (1,888) subgenomes o ka palaoa maʻamau.
7. Ke noiʻi ʻana i nā hiʻohiʻona hōʻike gene i pili i ke ʻano poʻomanaʻo mua
ʻElua mau genes FT me ka hōʻike kiʻekiʻe ma lalo o nā lā lōʻihi, ʻo ScFT1 a me ScFT2, i hōʻike ʻia ma ka hui genome Weining.ʻElua mau koena amino acid o ScFT2 (S76 a me T132) phosphorylation i loaʻa ka pilina me ka hoʻohaʻahaʻa ʻana i ka manawa.
Nā hiʻohiʻona hoʻomohala a me nā hiʻohiʻona e pili ana i ke ʻano poʻomanaʻo mua o Weining rye
8. ʻO ka ʻeli ʻana o nā ʻāpana chromosomal a me nā loci i hiki ke komo i ka hana ʻana i ka rai
He 123,647 mau SNP i hoʻohana ʻia no ka hoʻokō ʻana i ka nānā ʻana ma waena o ka rai mahiʻai a me S. vavilovii.ʻIke ʻia nā hōʻailona 11 koho e ka hōʻemi hōʻemi (DRI), kuhikuhi hoʻoponopono (FST) a me ke ʻano XP-CLR.Ua ʻike ʻia ʻo ScID1 hiki ke komo i ka hoʻoponopono ʻana i ka lā poʻomanaʻo.
Ka ʻike a me ka nānā ʻana o nā ʻāpana chromosomal a me nā loci e pili ana i ka home rye
Kuhikuhi
Li GW et al.Hōʻike ka hui genome kiʻekiʻe i nā ʻano genomic rye a me nā genes koʻikoʻi agronomically.Nature Genetics (2021)
Nūhou a me nā mea nui manaʻo e kaʻana like i nā hihia kūleʻa hou loa me Biomarker Technologies, ka hopu ʻana i nā hoʻokō ʻepekema hou a me nā ʻenehana kaulana i hoʻohana ʻia i ka wā o ke aʻo ʻana.
Ka manawa hoʻouna: Jan-05-2022