Golaha Genome ee saldhigiisu yahay Hi-C
Faa'iidooyinka Adeegga
Dulmarka Hi-C
(Lieberman-Aiden E et al.,Sayniska, 2009)
● Looma baahna in la dhiso tirada hidde-sideyaasha si ay u istaagaan;
● Cufnaanta calaamade sare taasoo horseedaysa saamiga xidhidhiyaha sare ee ka sarreeya 90%;
● Wuxuu sahlaa qiimeynta iyo sixitaanka shirarka genome-ka ee jira;
● Wakhti gaaban oo soo-wareejin leh oo saxnaan sare leh ee isu-ururinta genome;
● Khibrad badan oo leh in ka badan 1000 Hi-C maktabado loo dhisay in ka badan 500 oo nooc;
● In ka badan 100 kiis oo lagu guulaystay oo leh isugeyn la daabacay oo saameyn ah oo ka badan 760;
● Hi-C-ku-saleysan genome-ga ee genome-ga polyploid-ka, 100% heerka joogsiga ayaa lagu gaaray mashruucii hore;
● Ruqsadaha-guriga iyo xuquuqda daabacaada software-ka ee tijaabooyinka Hi-C iyo falanqaynta xogta;
● Iskiis u horumaray software-ka hagaajinta xogta, waxa ay awood u siinaysaa hab-nololeedka dhaqdhaqaaqa, rogida, burinta iyo dib u samaynta.
Tilmaamaha Adeegga
|
Nooca Maktabadda
|
Platform | Akhri Dhererka | Istaraatiijiyad ku talin |
| Hi-C | Illumina NovaSeq | PE150 | ≥ 100X |
Falanqaynta bioinformatics
● Xakamaynta tayada xogta ceeriin
● Xakamaynta tayada maktabadda Hi-C
● Hi-C ku salaysan isu imaatinka genome
● Qiimaynta shirka ka dib
Tusaalaha Shuruudaha iyo Bixinta
Tusaalaha Shuruudaha:
| Xoolaha | Fungus | Dhirta
|
| Nudaha la qaboojiyey: 1-2g maktabad kasta Unugyada: 1x 10^7 unug maktabadiiba | Nudaha la qaboojiyey: 1g maktabad kasta | Nudaha la qaboojiyey: 1-2g maktabad kasta
|
| * Waxaan si adag ugu talinaynaa in la diro ugu yaraan 2 aliquots (1 g midkiiba) tijaabada Hi-C. | ||
Tusaalaha keenista lagu taliyay
Weel: 2 ml oo tuubo sentrifuge ah (Faylada qasacadaysan laguma talinayo)
Inta badan shaybaarada, waxaan kugula talineynaa inaan lagu keydin ethanol.
Calaamadaynta Tusaalaha: Muunaduhu waxay u baahan yihiin in si cad loo calaamadiyo oo la mid ah foomka macluumaadka muunada ee la gudbiyay.
Shixnadda: Barafka qallalan: Muunadodu waxay u baahan yihiin in marka hore bac lagu shubo oo lagu aaso baraf qallalan.
Socodka Shaqada Adeegga
Naqshadaynta tijaabada
Tusaalaha keenista
Soo saarista DNA
Dhismaha maktabadda
Isku xigxiga
Falanqaynta xogta
Adeegyada iibka kadib
*Natiijooyinka demo ee halkan lagu muujiyey waxay dhamaantood ka yimaaddeen genome-yada lagu daabacay Tignoolajiyada Biomarker
1.Hi-C isdhexgalka khariidadda kuleylkaCamptotheca acuminatagenome.Sida ka muuqata khariidada, xoojinta is dhexgalka ayaa si xun ugu xidhan masaafada toosan, taas oo muujinaysa isku imaatinka heerka koromosoomyada aad u saxan.(saamiga ku xidhidhiyaha: 96.03%)
Kang M et al.,Isgaarsiinta Dabeecadda, 2021
2.Hi-C waxay fududaysay ansaxinta leexinta dhexdoodaGossypium hirsutumL. TM-1 A06 iyoG. arboreumTaariikhdii06
Yang Z iyo al.,Isgaarsiinta Dabeecadda, 2019
3.Ururka iyo kala-duwanaanta biilelic ee genom-ka cassava SC205.Khariidadda kulaylka Hi-C waxay muujisay kala qaybsanaan cad oo koromosoomyada isku midka ah.
Hu W iyo al.,Warshada Molecular, 2021
4.Hi-C khariidad kuleyl ah oo ku saabsan labada nooc ee Ficus genome kulanka:F.microcarpa(saamiga barkinta: 99.3%) iyoF.hispida (saamiga barkinta: 99.7%)
Zhang X iyo al.,Unug, 2020
Kiiska BMK
Genomes ee Geedka Banyan iyo Wasabka Pollinator-ka ayaa bixiya aragti ku saabsan isku-dhafka berdaha
La daabacay: Unug, 2020
Istaraatiijiyada isku xigxiga:
F. microcarpa genome: Qiyaastii.84 X PacBio RSII (36.87 Gb) + Hi-C (44 Gb)
F. Hispidagenome: Qiyaastii.97 X PacBio RSII (36.12 Gb) + Hi-C (60 Gb)
Eupristina verticillatagenome: Qiyaastii.170 X PacBio RSII (65 Gb)
Natiijooyinka muhiimka ah
1.Laba genomes geedo banyan ah iyo hal genome wasp pollinator ah ayaa la dhisay iyadoo la adeegsanayo taxanaha PacBio, Hi-C iyo khariidad isku xidhka.
(1)F. microcarpagenome: Kulan ka kooban 426 Mb (97.7% qiyaasta genome-ga lagu qiyaasay) ayaa lagu aasaasay N50 ee 908 Kb, buundada BUSCO ee 95.6%.Isku darka 423 Mb ee isku xigxiga waxa lagu xidhay 13 koromosoomyada Hi-C.Sharaxaada genome-ka waxa ay keentay 29,416 hiddo-side codeed borotiin.
(2)F. Hispidagenome: Kulan ka kooban 360 Mb (97.3% qiyaasta genome-ga lagu qiyaasay) ayaa soo saaray N50 oo ah 492 Kb iyo BUSCO oo ah 97.4%.Isku darka 359 Mb ee isku xigxiga ayaa lagu xidhay 14 koromosoomyada Hi-C oo aad ula mid ah khariidadda isku xirka cufnaanta sare.
(3)Eupristina verticillatagenome: Kulan ka kooban 387 Mb (Xajmiga genome ee la qiyaasay: 382 Mb) ayaa la aasaasay oo leh N50 oo ah 3.1 Mb iyo BUSCO oo ah 97.7%.
2. Falanqaynta genomics isbarbardhigga ayaa muujisay tiro badan oo kala duwanaansho qaab-dhismeedka u dhexeeya labaFicusgenomes, kaas oo bixiyay kheyraadka hidda-socodka ee qiimaha leh ee daraasadaha horumarinta la qabsiga.Daraasaddan, markii ugu horreysay, waxay bixisay aragtiyo ku saabsan isku-dhafka berdaha ee heerka genomic-ga.
 Jaantuska Circos ee sifooyinka genomic ee labaFicusgenomes, oo ay ku jiraan koromosoomyada, nuqullada qaybaha (SDs), transposons (LTR, TEs, DNA TEs), muujinta hiddaha iyo synteny |  Aqoonsiga koromosoomyada Y iyo hiddaha go'aaminta jinsiga |
Zhang, X., iyo al."Genomes of the Banyan Tree iyo Pollinator Wasp waxay bixiyaan aragtiyo ku saabsan Fig-Wasp Coevolution."Unug 183.4(2020).
