INdibano yeGenome esekelwe kwi-Hi-C
I-Hi-C yindlela eyilelwe ukubamba ulungelelwaniso lwechromosome ngokudibanisa ukudibana okusekwe kufutshane kunye nolandelelwano oluphezulu. Ukuqina kolu nxibelelwano kukholelwa ukuba lunxulunyaniswa kakubi nomgama womzimba kwiichromosomes. Ke ngoko, idatha ye-Hi-C isetyenziselwa ukukhokela ukudityaniswa, ukulandelelana, kunye nokulungelelaniswa kolandelelwano oludityanisiweyo kwi-genome eyidrafti kunye nokuqinisa ezo kwinani elithile lekhromozomi. Obu buchwepheshe buxhobisa indibano yegenome yenqanaba lechromosome ngokungabikho kwemephu yofuzo esekwe ngabantu. Yonke i-genome enye idinga i-Hi-C.
Iimpawu zeNkonzo
● Ukulandelelanisa kwi-Illumina NovaSeq nge-PE150.
● Inkonzo ifuna iisampulu zethishu, endaweni yee-nucleic acids ezikhutshiweyo, ukuze zidibanise i-formaldehyde kwaye zilondoloze ukudibana kwe-DNA-protein.
● Uvavanyo lwe-Hi-C lubandakanya uthintelo kunye nokulungiswa kokuphela kweziphelo ezincangathi nge-biotin, kulandelwa kukujikeleziswa kweziphelo ezibuthuntu ezibe neziphumo ngelixa ugcina unxibelelwano. I-DNA ke itsalwa phantsi ngamaso e-streptavidin kwaye ihlanjululwe ukulungiselela ukulungiswa kwethala leencwadi elilandelayo.
Iinkonzo eziluncedo
Isishwankathelo se-Hi-C
(uLieberman-Aiden Et al.,Inzululwazi, 2009)
●Ukuphelisa iMfuno yeDatha yaBemi bemfuza:I-Hi-C ithatha indawo yolwazi oluyimfuneko olufunekayo kwi-ankile ye-contig.
●Uxinaniso lwemarker ephezulu:okukhokelela kumlinganiselo ophezulu we-ankile ye-contig ngaphezulu kwe-90%.
●UbuGcisa obuBanzi kunye neerekhodi zopapasho:I-BMKGene inamava amaninzi kunye namatyala angaphezu kwama-2000 e-Hi-C Genome Assembly evela kwiintlobo ezahlukeneyo ze-1000 kunye namalungelo awodwa abenzi. Ngaphezu kwama-200 amatyala apapashiweyo anempembelelo eyongezelekayo engaphezu kwama-2000.
●Iqela le-bioinformatics elinezakhono eziphezulu:kunye namalungelo awodwa abenzi bendlu kunye namalungelo okushicilela esoftware kwimifuniselo ye-Hi-C kunye nohlalutyo lwedatha, isoftware yedatha yokubona ephuhlisiweyo yenza ibhloko yezandla ishukume, ibuyisele umva, irhoxise, kwaye iphinde yenziwe.
●Inkxaso yasemva kwentengiso:Ukuzinikela kwethu kudlulela ngaphaya kokugqitywa kweprojekthi kunye neenyanga ezi-3 emva kokuthengiswa kwenkonzo. Ngeli xesha, sinikezela ngokulandelelana kweprojekthi, uncedo lokusombulula ingxaki, kunye neeseshoni ze-Q&A ukujongana nayo nayiphi na imibuzo enxulumene neziphumo.
●Isichasiselo esiBanzi: sisebenzisa ugcino-lwazi oluninzi ukuze sichaze ngokusebenzayo iijini ezineenguqu ezichongiweyo kwaye senze uhlalutyo oluhambelanayo lokutyebisa, ukubonelela ngemibono kwiiprojekthi zophando ezininzi.
IiNgcaciso zeNkonzo
| Ukulungiswa kwethala leencwadi | Isicwangciso sokulandelelana | Imveliso yedatha ecetyiswayo | Ulawulo lwemeko |
| Hi-C ilayibrari | Illumina NovaSeq PE150 | 100x | Q30 ≥ 85% |
IiMfuno zeSampulu
| Izicubu | Imali efunekayo |
| Animal Viscera | ≥ 2 g |
| Animal Muscle | |
| Igazi leMammalian | ≥ 2 ml |
| Iinkukhu / Igazi lentlanzi | |
| Isityalo- Igqabi Elitsha | ≥ 3 g |
| Iiseli Cultured | ≥ 1x107 |
| isinambuzane | ≥ 2 g |
Ukuhamba komsebenzi weNkonzo
Uyilo lovavanyo
Ukuhanjiswa kwesampuli
Ukwakhiwa kwethala leencwadi
Ukulandelelanisa
Uhlalutyo lwedatha
Iinkonzo emva kokuthengisa
1) Idatha eluhlaza ye-QC
2) Ithala leencwadi le-Hi-C le-QC: uqikelelo lwentsebenziswano esebenzayo ye-Hi-C
3) Indibano ye-Hi-C: ukudityaniswa kwee-contigs ngokwamaqela, kulandelwa yi-contig odolo phakathi kweqela ngalinye kunye nokwabela i-contig orientation.
4) Uvavanyo lwe-Hi-C
IThala leeNcwadi le-Hi-C QC – uqikelelo lwe-Hi-C esebenzayo izibini zonxibelelwano
INdibano ye-Hi-C - izibalo
Uvavanyo lwe-post-assembly - imephu yokushisa yobuninzi bomqondiso phakathi kwemigqomo
Phonononga inkqubela phambili eququzelelwa yi-BMKGene yeenkonzo zendibano ye-Hi-C ngengqokelela egciniweyo yopapasho.
Tian, T. et al. (2023) 'Indibano ye-Genome kunye ne-genetic dissection ye-germplasm yombona eveleleyo kwimbalela', i-Nature Genetics 2023 55: 3, 55 (3), iphe. 496-506. doi: 10.1038/s41588-023-01297-y.
Wang, ZL et al. (2020) 'Indibano yeChromosome-Scale ye-Asian Honeybee Apis cerana Genome', iFrontiers kwiGenetics, i-11, iphe. 524140. doi: 10.3389/FGENE.2020.00279/BIBTEX.
UZhang, F. et al. (2023) 'Ukutyhila ukuguquka kwe-tropane alkaloid biosynthesis ngokuhlalutya i-genomes ezimbini kwintsapho yaseSolanaceae', uNxibelelwano lweNdalo 2023 14: 1, 14 (1), iphe. 1-18. doi: 10.1038/s41467-023-37133-4.
Zhang, X. et al. (2020) 'IiGenomes zoMthi weBanyan kunye nePollinator Wasp zibonelela ngeeInsights kwiFig-Wasp Coevolution', iSeli, 183 (4), iphepha 875-889.e17. doi: 10.1016/J.CELL.2020.09.043
