I-Genomics Eqhathanisayo
Izinzuzo Zesevisi
●Ubuchwepheshe Obubanzi kanye namarekhodi okushicilela: njengoba iqongelelwe, i-BMKGene isiqede amaphrojekthi angaphezu kuka-90 okuqhathaniswa kwezakhi zofuzo, kanti isici somthelela esiqongelelwe sifinyelele ku-900.
●Ukuhlaziywa okuphelele kwe-bioinformatics: iphakheji yokuhlaziya iqukethe ukuhlaziya okuyisishiyagalombili okuvame ukudingeka, okunikeza izibalo eziklanywe kahle ezilungele ukushicilelwa futhi okuvumela ukuchazwa okulula kwemiphumela
●Ithimba le-bioinformatics elinekhono eliphezulu kanye nomjikelezo omfushane wokuhlaziya: ngesipiliyoni esihle ekuhlaziyweni kwe-genomics okuqhathanisayo, ithimba le-BMKGene ligcwalisa izidingo zokuhlaziya ezenzelwe wena ezahlukahlukene ngesikhathi esifushane sokuguquka.
●Usekelo Lwangemva Kokuthengisa:Ukuzibophezela kwethu kudlulela ngale kokuqedwa kwephrojekthi ngesikhathi senkonzo yezinyanga ezintathu ngemuva kokuthengisa. Phakathi nalesi sikhathi, sinikeza ukulandelwa kwephrojekthi, usizo lokuxazulula izinkinga, kanye nezikhathi zemibuzo nezimpendulo ukuze kuxazululwe noma yimiphi imibuzo ehlobene nemiphumela.
Imininingwane Yesevisi
| Isikhathi esilinganiselwe sokujika | Inani lezinhlobo | Ukuhlaziya |
| Izinsuku zokusebenza ezingama-30 | 6 - 12 | Ukuhlanganiswa kwemindeni yezakhi zofuzo Ukwanda kanye nokuncipha komndeni we-gene Ukwakhiwa kwesihlahla se-phylogenetic Ukuqagela kwesikhathi sokwehluka (Kudingeka ukulinganiswa kwezinsalela) Isikhathi sokufaka i-LTR (Kwezitshalo) Ukuphindaphindwa kwe-genome ephelele (Kwezitshalo) Ingcindezi yokukhetha Ukuhlaziywa kwe-synteny |
Ukuhlaziywa kwe-Bioinformatics
● Umndeni we-gene
● I-Phylogenetics
● Isikhathi sokwehlukana
● Ingcindezi ekhethiwe
● Ukuhlaziywa kwe-synteny
Izidingo Zesampula Nokulethwa
Izidingo Zesampula:
Izicubu noma i-DNA yokulandelana kwe-genome nokuhlanganiswa kwayo
Kwezicubu
| Izinhlobo | Izicubu | Ucwaningo | I-Pacbio CCS |
| Isilwane | Izicubu ze-visceral | ≥ 0.2 g | ≥ 1 g |
| Izicubu zemisipha | |||
| Igazi lezilwane ezincelisayo | ≥ 0.3 mL | ≥ 1 mL | |
| Igazi lenkukhu/lenhlanzi | ≥ 0.05 mL | ≥ 0.1 mL | |
| Isinambuzane | ≥ 0.2 g | ≥ 1 g | |
| Isitshalo | Iqabunga elisha | ≥ 0.5 g | ≥ 2 g |
| Izinto Eziphilayo Zasemanzini | Izicubu zemisipha | ≥ 0.3 g | ≥ 1.5 g |
| Ulwelwe | ≥ 0.5 g | ≥ 3.0 g | |
| Amaseli | Amaseli akhuliswe | ≥ 1x106 | ≥ 5x106 |
Idatha
Amafayela okulandelana kwezakhi zofuzo (.fasta) kanye namafayela ezichasiselo (.gff3) zezinhlobo ezihlobene eduze
Ukugeleza Komsebenzi Wesevisi
Umklamo wokuhlola
Ukulethwa kwesampula
Ukwakhiwa komtapo wolwazi
Ukulandelana
Ukuhlaziywa kwedatha
Izinsizakalo zangemuva kokuthengisa
*Imiphumela yedemo eboniswe lapha yonke ivela kuma-genome ashicilelwe nge-Biomarker Technologies
1. Ukuqagela kwesikhathi sokufaka se-LTR: Lesi sibalo sibonise ukusatshalaliswa okuhlukile kwe-bimodal ezikhathini zokufaka ze-LTR-RTs ku-Weining rye genome, uma kuqhathaniswa nezinye izinhlobo. I-peak yakamuva yavela cishe eminyakeni eyizigidi ezingu-0.5 edlule.
ULi Guang nabanye.,Izakhi Zofuzo Zemvelo, 2021
2. Ukuhlaziywa komndeni we-phylogeny kanye nezakhi zofuzo ku-chayote (Sechium edule): Ngokuhlaziya i-chayote nezinye izinhlobo ezingu-13 ezihlobene emndenini wezakhi zofuzo, i-Chayote itholakale ihlobene kakhulu ne-snake gourd (Trichosanthes anguina). I-Chayote itholakala ku-snake gourd cishe ku-27-45 Mya kanye nokuphindaphindwa kwezakhi zofuzo (WGD) kwabonwa ku-chayote ku-25±4 Mya, okuyisenzakalo sesithathu se-WGD ku-cucuibitaceae.
UFu A nabanye,Ucwaningo Lwezolimo, 2021
3. Ukuhlaziywa kwe-synteny: Ezinye izakhi zofuzo ezihlobene nama-phytohormones ekukhuleni kwezithelo zitholakale ku-chayote, i-snake gourd kanye ne-squash. Ubudlelwano phakathi kwe-chayote ne-squash buphakeme kancane kunalokho okuphakathi kwe-chayote ne-snake gourd.
UFu A nabanye,Ucwaningo Lwezolimo, 2021
4. Ukuhlaziywa komndeni we-gene: Ukucebisa nge-KEGG ekwandiseni nasekuncipheni komndeni we-gene kuma-genome e-G.thurberi kanye ne-G.davidsonii kubonise ukuthi ama-genome ahlobene ne-steroid biosynthesis kanye ne-brassinosteroid biosynthesis anwetshiwe.
UYang Z nabanye.,Ibhayoloji ye-BMC, 2021
5. Ukuhlaziywa kokuphindaphinda kwe-genome ephelele: Ukuhlaziywa kokusabalalisa kwe-4DTV kanye ne-Ks kubonise umcimbi wokuphindaphinda kwe-genome yonke. Iziqongo ze-intraspecies zibonise imicimbi yokuphindaphinda. Iziqongo ze-interspecies zibonise imicimbi yokuhlukanisa. Ukuhlaziywa kubonise ukuthi uma kuqhathaniswa nezinye izinhlobo ezintathu ezihlobene eduze, i-O. europaea idlule ekuphindaphindweni kwe-gene enkulu muva nje.
URao G nabanye.,Ucwaningo Lwezolimo, 2021
Ikesi le-BMK
I-Rose engenama-prickle: ukuqonda kwe-genomic okuhlobene nokuzivumelanisa nomswakama
Kushicilelwe: Isibuyekezo Sesayensi Kazwelonke, 2021
Isu lokulandelana:
'UBasye'sI-Thornless' (R.I-Wichurainan) i-genome:
Cishe i-93 X PacBio + cishe i-90 X Nanopore + 267 X Illumina
Imiphumela eyinhloko
1. I-genome ye-R.wichuraiana esezingeni eliphezulu yakhiwe kusetshenziswa amasu okulandelana afundwe isikhathi eside, aveza ukuhlanganiswa okungu-530.07 Mb (Usayizi we-genome olinganisiwe wawucishe ube ngu-525.9 Mb nge-flow cytometry kanye no-525.5 nge-genome survey； I-Heterozygosity yayicishe ibe ngu-1.03%). I-BUSCO elinganisiwe yamaphuzu yayingu-93.9%. Uma iqhathaniswa ne-“Old blush” (haploOB), ikhwalithi nokuphelela kwale genome kwaqinisekiswa ngokunemba kwesisekelo esisodwa kanye ne-LTR assembly index (LAI=20.03). I-genome ye-R.wichuraiana iqukethe ama-gene okubhala amaprotheni angu-32,674.
2. Ukuhlaziywa kwamalunga e-Multi-omics, okuhlanganisa i-genomics yokuqhathanisa, i-transcriptomics, ukuhlaziywa kwe-QTL kwenani lezakhi zofuzo, kwembule ukuhlukaniswa okubalulekile phakathi kuka-R. wichuraiana noRosa chinensis. Futhi, ukuhlukahluka kokubonakaliswa kwezakhi zofuzo ezihlobene ku-QTL kungenzeka ukuthi kuhlotshaniswa nokuhlelwa kwe-stem prickle.
Ukuhlaziywa kwezakhi zofuzo okuqhathanisayo phakathi kweThornless kaBasye kanye neRosa chinensis okuhlanganisa ukuhlaziywa kwe-synteny, iqoqo lomndeni wezakhi zofuzo, ukuhlaziywa kokukhula kanye nokufinyela, kwembule inani elikhulu lokwehluka, okuhlobene nezici ezibalulekile kuma-rose. Ukwanda okuyingqayizivele emndenini wezakhi zofuzo we-NAC kanye ne-FAR1/FRS cishe kwakuhlotshaniswa nokumelana namabala amnyama.
Ukuhlaziywa kwezakhi zofuzo okuqhathanisayo phakathi kwama-genome e-BT kanye ne-haploOB.
Zhong, M., et al. “I-Rose without prickle: ukuqonda kwezakhi zofuzo okuhlobene nokuzivumelanisa nomswakama”Isibuyekezo Sesayensi Kazwelonke, 2021;, nwab092.
