Ukulandelana kwe-Metagenomic -NGS
I-metagenome iqoqo lezinto eziphathelene nezakhi zofuzo zomphakathi oxubile wezinto eziphilayo, njenge-metagenome yezemvelo neyabantu. Iqukethe ama-genome ezinto ezincane ezingatshalwa kanye nezingalinywa. Ukulandelana kwe-metagenomic nge-Shotgun nge-NGS kwenza kube lula ukutadisha lezi zindawo eziyinkimbinkimbi ze-genomic ezifakwe kumasampula ezemvelo ngokunikeza okungaphezu kokulandelelana kwe-taxonomic, okunikeza nokuqonda okuningiliziwe ngokuhlukahluka kwezinhlobo, ukuguquguquka kobuningi, kanye nezakhiwo eziyinkimbinkimbi zabantu. Ngaphandle kwezifundo ze-taxonomic, i-shotgun metagenomics iphinde inikeze umbono osebenzayo we-genomics, okuvumela ukuhlola izakhi zofuzo ezifakiwe kanye nezindima zazo ezibeka engcupheni yezemvelo. Okokugcina, ukusungulwa kwamanethiwekhi okuxhumana phakathi kwezakhi zofuzo kanye nezici zemvelo kunikela ekuqondeni okuphelele kokuxhumana okuyinkimbinkimbi phakathi kwemiphakathi yamagciwane kanye nesizinda sayo semvelo. Ekuphetheni, ukulandelana kwe-metagenomic kumi njengethuluzi elibalulekile lokwembula ubunzima be-genomic bemiphakathi yamagciwane ahlukahlukene, kukhanyise ubudlelwano obunezinhlangothi eziningi phakathi kwezakhi zofuzo kanye nemvelo ngaphakathi kwalezi zindawo zemvelo eziyinkimbinkimbi.
Amapulatifomu: Illumina NovaSeq kanye ne-DNBSEQ-T7
Izinzuzo Zesevisi
●Indlela Yokuzihlukanisa Nokulima Engenazo Izindlela Zokuhlela Iphrofayili Yomphakathi Wezincane: Ukuvumela ukulandelana kwezinto zofuzo ezivela ezintweni eziphilayo ezingalinywa.
●Isixazululo Esiphezulu: Thola izinhlobo ezitholakala kalula kumasampula emvelo.
●Ukuhlaziywa Okuphelele Kwe-Bioinformatics:Akugxilile nje kuphela ekwahlukaneni kwe-taxonomic kodwa futhi nasekuhlukeni kokusebenza komphakathi.
●Okuhlangenwe nakho Okubanzi:Njengoba ithimba lethu liphethe umlando wokuvala ngempumelelo amaphrojekthi amaningi e-metagenomics ezindaweni ezahlukene zocwaningo kanye nokucubungula amasampula angaphezu kuka-200,000, liletha ulwazi oluningi kuyo yonke iphrojekthi.
Imininingwane Yesevisi
| Ipulatifomu yokulandelana | Isu Lokulandelana | Kunconywa idatha | Ikhwalithi yokulawula |
| I-Illumina NovaSeq noma i-DNBSEQ-T7 | I-PE150 | 6-20Gb | Q30≥85% |
Izidingo Zesevisi
| Ukugxila (ng/µL) | Inani eliphelele (ng) | Ivolumu (µL) |
| ≥1 | ≥30 | ≥20 |
● Inhlabathi/udaka: 2-3g
● Okuqukethwe kwamathumbu - isilwane: 0.5-2g
● Okuqukethwe emathunjini - isinambuzane: 0.1-0.25g
● Ubuso besitshalo (inhlabathi ecebile): 0.5-1g
● Umhluzi wokubilisa ocebile nge-sediment): 0.2-0.5g
● Indle (izilwane ezinkulu): 0.5-2g
● Indle (igundane): izinhlamvu ezingu-3-5
● Uketshezi lokuhlanza i-alveolar yamaphaphu: iphepha lokuhlunga
● I-swab yesitho sangasese sowesifazane: ama-swab angu-5-6
● I-swab yesikhumba/yesitho sangasese/amathe/izicubu ezithambile zomlomo/i-swab ye-pharyngeal/i-rectal swab: ama-swab angu-2-3
● Izinto ezincane ezingaphandle: ama-swabs angu-5-6
● Umzimba wamanzi/umoya/i-biofilm: iphepha lokuhlunga
● Ama-Endophyte: 2-3g
● Ibhodi Lamazinyo: 0.5-1g
Ukugeleza Komsebenzi Wesevisi
Ukulethwa kwesampula
Ukwakhiwa komtapo wolwazi
Ukulandelana
Ukuhlaziywa kwedatha
Izinsizakalo zangemuva kokuthengisa
Kufaka phakathi ukuhlaziywa okulandelayo:
● Ukulawula ikhwalithi yedatha ngokulandelana
● Ukuhlanganiswa kwe-Metagenome kanye nokubikezela izakhi zofuzo
● Isichasiselo sejini
● Ukuhlaziywa kokwehlukahlukana kwe-alpha ye-taxonomic
● Ukuhlaziywa kokusebenza komphakathi: umsebenzi webhayoloji, ukwakheka kwe-metabolic, ukumelana nama-antibiotic
● Ukuhlaziywa kokubili kokuhlukahluka kokusebenza kanye nokwe-taxonomic:
Ukuhlaziywa kokwehlukahluka kwe-Beta
Ukuhlaziywa kwamaqembu
Ukuhlaziywa kobudlelwano: phakathi kwezici zemvelo kanye nokwakheka kanye nokuhlukahluka kwe-OUT
Ukuhlaziywa kokusebenza: Ukumelana nama-antibiotic e-CARD
Ukuhlaziywa okuhlukile kwezindlela ze-metabolic ze-KEGG: imephu yokushisa yezindlela ezibalulekile
Ukuhlukahluka kwe-alpha kokusatshalaliswa kwe-taxonomic: Inkomba ye-ACE
Ukuhlukahluka kwe-beta kokusatshalaliswa kwe-taxonomic: PCoA
Hlola intuthuko eyenziwe yizinsizakalo zokulandelana kwe-BMKGene nge-Illumina ngokusebenzisa iqoqo lezincwadi ezikhethiwe.
UHai, Q. et al. (2023) 'Ukuhlaziywa kwe-metagenomic kanye ne-metabolomic kokushintsha kokuqukethwe kwamathumbu e-rainbow trout (Oncorhynchus mykiss) etheleleke ngegciwane le-hematopoietic necrosis elithelelanayo emazingeni okushisa ahlukene amanzi akhuliswe',Imingcele ku-Microbiology, 14, ikhasi 1275649. doi: 10.3389/FMICB.2023.1275649.
UMao, C. et al. (2023) 'Imiphakathi yama-microbial, izakhi zofuzo zokumelana, kanye nezingozi zokumelana emachibini asemadolobheni ezimo ezahlukene ze-trophic: Izixhumanisi zangaphakathi kanye nethonya langaphandle',Ijenali Yentuthuko Yezinto Eziyingozi,9, p. 100233. doi: 10.1016/J.HAZADV.2023.100233.
USu, M. et al. (2022) 'Ukuhlaziywa kwe-Metagenomic Kwembule Umehluko Ekubunjweni Nasemsebenzini Phakathi Kwezinto Ezincane Ezihlobene Noketshezi Neziqinile Ze-Sheep Rumen',Imingcele ku-Microbiology, 13, ikhasi 851567. doi: 10.3389/FMICB.2022.851567.
Yin, J. et al. (2023) 'I-microbiota etholakala engulubeni i-Ningxiang ekhuluphele iphinda ifake i-carnitine metabolism ukuze ikhuthaze ukufakwa kwe-muscle fatty acid ezingulubeni ezingenamafutha',Ukuqamba Izinto Ezintsha, 4(5), p. 100486. doi: 10.1016/J.XINN.2023.100486.
Zhao, X. et al. (2023) 'Ukuqonda kwe-metagenomic ngezingozi ezingaba khona zepulasitiki emele i-bio/non-degradable kanye nemfucumfucu engeyona ipulasitiki ezindaweni eziphezulu nezingezansi ze-Haihe Estuary, eShayina',Isayensi Yemvelo Ephelele, 887, ikhasi. 164026. doi: 10.1016/J.SCITOTENV.2023.164026.
