Hi-C Based Genome Assembly
Hi-C ke mokhoa o etselitsoeng ho ts'oara tlhophiso ea chromosome ka ho kopanya litšebelisano tse thehiloeng ho proximity le tatellano ea maemo a holimo. Ho lumeloa hore matla a litšebelisano tsena a amana hampe le sebaka sa 'mele ho li-chromosome. Ka hona, data ea Hi-C e sebelisoa ho tataisa ho kopanya, ho hlophisa, le ho tsamaisa tatellano e kopaneng ho genome e hlophisitsoeng le ho tiisa tseo palo e itseng ea li-chromosome. Theknoloji ena e matlafatsa kopano ea boemo ba chromosome genome ha ho se na 'mapa oa liphatsa tsa lefutso o thehiloeng ho baahi. Genome e 'ngoe le e' ngoe e hloka Hi-C.
Likarolo tsa Tšebeletso
● Tatelano ho Illumina NovaSeq le PE150.
● Tšebeletso e hloka lisampole tsa linama, ho e-na le li-nucleic acid tse nkiloeng, hore li hokahane le formaldehyde le ho baballa tšebelisano ea DNA le protheine.
● Teko ea Hi-C e kenyelletsa ho thibela le ho lokisa lipheletso tse khomarelang ka biotin, 'me e lateloe ke ho potoloha ha lipheletso tse lerootho ha ho ntse ho bolokoa litšebelisano. DNA e ntan'o huleloa fatše ka lifaha tsa streptavidin ebe e hloekisoa bakeng sa ho lokisoa ha laebrari e latelang.
Melemo ea Tšebeletso
Kakaretso ea Hi-C
(Lieberman-Aiden Et al.,Saense, 2009)
●Ho Felisa Tlhokahalo ea Lintlha tsa Baahi ba Liphatsa tsa lefutso:Hi-C e nkela sebaka sa tlhahisoleseling ea bohlokoa e hlokahalang bakeng sa contig anchoring.
●Tšebeliso e phahameng ea lesupa:e lebisang ho tekanyo e phahameng ea contig anchoring ka holimo ho 90%.
●Lirekoto tse pharalletseng tsa Boitsebi le phatlalatso:BMKGene e na le boiphihlelo bo boholo ka linyeoe tse fetang 2000 tsa Hi-C Genome Assembly ho tsoa ho mefuta e 1000 e fapaneng le litokelo tse fapaneng tse fapaneng. Linyeoe tse fetang 200 tse hatisitsoeng li na le tšusumetso e kholo ho feta 2000.
●Sehlopha se nang le tsebo e phahameng ea bioinformatics:e nang le litokelo tsa molao tsa ka tlung le litokelo tsa litokelo tsa software bakeng sa liteko tsa Hi-C le tlhahlobo ea data, software e iketselitseng eona ea ho bonts'a data e nolofalletsang li-block block ho sisinyeha, ho khutlisa, ho hlakola le ho etsa bocha.
●Tšehetso ea Ka mor'a Thekiso:Boitlamo ba rona bo fetela ka nģ'ane ho ho phethoa ha morero ka nako ea tšebeletso ea likhoeli tse 3 ka mor'a thekiso. Nakong ena, re fana ka tatellano ea projeke, thuso ea ho rarolla mathata, le linako tsa Q&A ho araba lipotso life kapa life tse amanang le sephetho.
●Tlhaloso e Pharalletseng: re sebelisa li-database tse ngata ho hlakisa liphatsa tsa lefutso ka mefuta e fapaneng e tsebahalang le ho etsa tlhahlobo e tsamaellanang ea ntlafatso, ho fana ka leseli mabapi le merero e mengata ea lipatlisiso.
Litlhaloso tsa Tšebeletso
| Ho lokisetsa laebrari | Leano la tatellano | Tlhahiso ea data e khothalelitsoeng | Taolo ea boleng |
| Laebrari ea Hi-C | Illumina NovaSeq PE150 | 100x | Q30 ≥ 85% |
Litlhoko tsa Mohlala
| Tishu | Chelete e hlokahalang |
| Viscera ea liphoofolo | ≥ 2 g |
| Mosifa oa Phoofolo | |
| Mali a Mammalian | ≥ 2 ml |
| Mali a likhoho/Litlhapi | |
| Semela- Lekhasi le Lecha | ≥3 g |
| Lisele tsa Cultured | ≥ 1x107 |
| Koanyana | ≥ 2 g |
Phallo ea Mosebetsi oa Ts'ebeletso
Moqapi oa liteko
Mohlala oa thomello
Kaho ea laebrari
Tatelano
Tlhahlobo ea lintlha
Litšebeletso tsa ka mor'a thekiso
1) Lintlha tse tala QC
2) Hi-C laeborari ea QC: khakanyo ea litšebelisano tse nepahetseng tsa Hi-C
3) Kopano ea Hi-C: ho bokellana ha li-contig ka lihlopha, ho lateloa ke taelo ea contig ka har'a sehlopha se seng le se seng le ho abela maemo a contig.
4) Tlhahlobo ea Hi-C
Hi-C Library QC - khakanyo ea lipara tsa tšebelisano tse sebetsang tsa Hi-C
Kopano ea Hi-C - lipalo-palo
Tlhahlobo ea kamora kopano - 'mapa oa mocheso oa matla a matšoao lipakeng tsa meqomo
Lekola tsoelopele e tsamaisoang ke litšebeletso tsa kopano ea Hi-C ea BMKGene ka pokello e hlophisitsoeng ea lingoliloeng.
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Wang, ZL et al. (2020) 'A Chromosome-Scale Assembly of the Asian Honeybee Apis cerana Genome', Frontiers in Genetics, 11, leq. 524140. doi: 10.3389/FGENE.2020.00279/BIBTEX.
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Zhang, X. et al. (2020) 'Genomes of the Banyan Tree le Pollinator Wasp Fana ka Lintlha ka Fig-Wasp Coevolution', Cell, 183 (4), leqepheng la 875-889.e17. doi: 10.1016/J.CELL.2020.09.043
