-
Ukulandelana kwe-Metagenomic -NGS
I-metagenome iqoqo lengqikithi yezakhi zofuzo zomphakathi oxubile wezinto eziphilayo, ezifana nemvelo kanye ne-metagenomes yabantu. Iqukethe ama-genomes womabili ama-microorganisms alinywayo nangenakulinywa. Ukulandelana kwe-Shotgun metagenomic ne-NGS kuvumela ukucwaninga kwalezi zindawo eziyinkimbinkimbi ze-genomic ezishumekwe kumasampuli emvelo ngokunikeza okungaphezu kokwenza iphrofayili ye-taxonomic, kunikeze nemininingwane eyimbudumbudu ngokuhlukahluka kwezinhlobo zezilwane, ukuguquguquka kobuningi, kanye nezakhiwo eziyinkimbinkimbi zabantu. Ngaphandle kwezifundo ze-taxonomic, i-shotgun metagenomics iphinde inikeze umbono osebenzayo we-genomics, ovumela ukuhlolwa kwezakhi zofuzo ezifakwe ikhodi kanye nezindima zazo zokubeka ezinqubweni zemvelo. Okokugcina, ukusungulwa kwamanethiwekhi okuxhumana phakathi kwezakhi zofuzo kanye nezici zemvelo kunomthelela ekuqondeni okuphelele kokuhlangana okuyinkimbinkimbi phakathi kwemiphakathi yezilwanyana ezincane kanye nesizinda sayo semvelo. Sengiphetha, ukulandelana kwe-metagenomic kumi njengethuluzi elibalulekile lokwembula ubunkimbinkimbi bofuzo lwemiphakathi ehlukahlukene yamagciwane, okukhanyisa ubudlelwano obunezinhlangothi eziningi phakathi kofuzo kanye ne-ecology ngaphakathi kwalezi zinhlelo zemvelo eziyinkimbinkimbi.
Amapulatifomu: Illumina NovaSeq kanye ne-DNBSEQ-T7
-
I-Metagenomic Sequencing-TGS
I-metagenome iqoqo lezakhi zofuzo zomphakathi oxubile wezinto eziphilayo, ezifana nemvelo kanye ne-metagenomes yabantu. Iqukethe ama-genomes womabili ama-microorganisms alinywayo nangenakulinywa. Ukulandelana kwe-Metagenomic kunika amandla ukucwaninga kwalezi zindawo eziyinkimbinkimbi ze-genomic ezishumekwe kumasampula emvelo ngokunikeza okungaphezu kokuphrofayili we-taxonomic. Iphinde inikeze umbono osebenzayo we-genomics ngokuhlola izakhi zofuzo ezifakwe ikhodi kanye nezindima zazo zokubeka ezinqubweni zemvelo. Ngenkathi isibhamu sendabuko sisondela ngokulandelana kwe-Illumina sisetshenziswe kakhulu ezifundweni ze-metagenomic, ukuvela kwe-Nanopore ne-PacBio ukulandelana okufundwe isikhathi eside kuye kwashintsha insimu. Ubuchwepheshe be-Nanopore ne-PacBio buthuthukisa ukuhlaziya kwe-bioinformatic engezansi, ikakhulukazi ukuhlangana kwe-metagenome, okuqinisekisa ukuhlangana okuqhubekayo. Imibiko ikhombisa ukuthi i-Nanopore-based and PacBio-based metagenomics ikhiqize ngempumelelo ama-genome ebhaktheriya aphelele navaliwe avela kuma-microbiomes ayinkimbinkimbi (Moss, EL, et al., Nature Biotech, 2020). Ukuhlanganisa ukufundwa kwe-Nanopore nokufundwa kwe-Illumina kunikeza indlela yamasu yokulungisa amaphutha, kunciphisa ukunemba okuphansi kwe-Nanopore okungokwemvelo. Le nhlanganisela ye-synergistic isebenzisa amandla enkundla ngayinye yokulandelana, inikeza isixazululo esiqinile sokunqoba imikhawulo engaba khona futhi ithuthukise ukunemba nokuthembeka kokuhlaziywa kwe-metagenomic.
I-Platform: Nanopore PromethION 48, Illumia ne-PacBio Revio
-
16S/18S/ITS Amplicon Sequencing-PacBio
Izakhi zofuzo ze-16S kanye ne-18S rRNA, kanye nesifunda se-Internal Transcribed Spacer (ITS), zisebenza njengezigxivizo zeminwe zemolekyuli ngenxa yenhlanganisela yazo yezifunda ezilondolozwe kakhulu neziguquguqukayo, okuzenza zibe amathuluzi abalulekile okubonisa izinto eziphilayo ze-prokaryotic ne-eukaryotic. Ukukhulisa nokulandelana kwalezi zifunda kunikeza indlela yokungahlukaniswa yodwa yokuphenya ukwakheka kwama-microbial kanye nokwehlukahlukana ezindaweni ezihlukahlukene zemvelo. Nakuba ukulandelana kwe-Illumina ngokuvamile kuqondise izifunda ezimfushane ezingaguquguquki njenge-V3-V4 ye-16S ne-ITS1, kuboniswe ukuthi isichasiselo se-taxonomic esiphezulu sifinyeleleka ngokulandelanisa ubude obugcwele be-16S, 18S, ne-ITS. Le ndlela ebanzi iphumela kumaphesenti aphezulu okulandelana okuhlukaniswe ngokunembile, kufinyelele izinga lokuxazulula elidlulela ekuhlonzweni kwezinhlobo zezilwane. Inkundla yokulandelana ye-Single-Molecule Real-Time (SMRT) ye-PacBio igqama ngokunikeza ukufundwa okude okunembe kakhulu (i-HiFi) okumboza ama-amplicon anobude obugcwele, ephikisana nokunemba kokulandelana kwe-Illumina. Leli khono livumela abacwaningi ukuthi bathole inzuzo engenakuqhathaniswa - umbono we-panoramic we-genetic landscape. Ukufakwa okunwetshiwe kuphakamisa kakhulu ukulungiswa kwesichasiselo sezinhlobo zezilwane, ikakhulukazi phakathi kwemiphakathi yamagciwane noma isikhunta, okuvumela ukuqonda okujulile kobunzima bezibalo zezinambuzane.
-
16S/18S/ITS Amplicon Sequencing-NGS
Ukulandelana kwe-Amplicon ngobuchwepheshe be-Illumina, eqondise ngokukhethekile omaka bezakhi zofuzo be-16S, 18S, kanye ne-ITS, kuyindlela enamandla yokwembula ukuchichima kwe-phylogeny, taxonomy, kanye nezinhlobo zezilwane ngaphakathi kwemiphakathi encane. Le ndlela ibandakanya ukulandelana kwezifunda ezingaguquguquki zezimpawu zofuzo zokugcina izindlu. Ekuqaleni yethulwe njengezigxivizo zeminwe ze-molecular byWoeses et alngo-1977, le ndlela iguqule iphrofayili ye-microbiome ngokuvumela ukuhlaziya okungenakho ukuhlukaniswa. Ngokulandelana kwe-16S (ibhaktheriya), i-18S (isikhunta), kanye ne-Internal Transcribed Spacer (ITS, isikhunta), abacwaningi abakwazi ukuhlonza kuphela izinhlobo zezilwane kodwa nezingavamile nezingaziwa. Njengoba yamukelwe kabanzi njengethuluzi elibalulekile, ukulandelana kwe-amplicon sekube wusizo ekuhlukaniseni ukwakheka kwama-microbial ahlukene ezindaweni ezihlukahlukene, okuhlanganisa umlomo womuntu, amathumbu, indle, nangale kwalokho.
-
Ukulandelana Kabusha Kwe-Genome Yamagciwane kanye Nesikhunta
Amaphrojekthi okulandelana kabusha kwe-bacterial and fungal whole-genome abalulekile ekuthuthukiseni i-microbial genomics ngokunika amandla ukuqedwa nokuqhathaniswa kwama-microbial genomes. Lokhu kusiza ubunjiniyela bokuvutshelwa, ukwenziwa kahle kwezinqubo zezimboni, kanye nokuhlolwa kwemizila yesibili yemetabolism. Ngaphezu kwalokho, ukulandelana kabusha kwesikhunta namagciwane kubalulekile ekuqondeni ukujwayela kwemvelo, ukukhulisa izinhlobo, nokwembula ukuguquguquka kofuzo, okunomthelela obanzi kwezokwelapha, ezolimo, kanye nesayensi yezemvelo.
-
Ukulandelana kwe-Prokaryotic RNA
Ukulandelana kwe-RNA kunika amandla ukuphrofayili okuphelele kwakho konke okulotshiwe kwe-RNA ngaphakathi kwamaseli ngaphansi kwezimo ezithile. Lobu buchwepheshe obusezingeni eliphezulu busebenza njengethuluzi elinamandla, lembula amaphrofayli ayinkimbinkimbi enkulumo yofuzo, izakhiwo zofuzo, nezindlela zamangqamuzana ezihambisana nezinqubo ezihlukahlukene zebhayoloji. Yamukelwe kabanzi ocwaningweni oluyisisekelo, ekuxilongweni komtholampilo, nasekuthuthukisweni kwezidakamizwa, ukulandelana kwe-RNA kunikeza ukuqonda ngobunkimbinkimbi bokuguquguquka kwamaselula kanye nokulawulwa kofuzo. Ukucubungula kwethu kwesampula ye-prokaryotic RNA yakhelwe ukubhalwa kwe-prokaryotic, okubandakanya ukuncipha kwe-rRNA kanye nokulungiswa komtapo wolwazi.
Ipulatifomu: Illumina NovaSeq
-
Ukulandelana kwe-Metatranscriptome
Ubuchwepheshe bokulandelana kwe-Illumina, isevisi yokulandelana kwe-metaranscriptome ye-BMKGENE yembula ukubonakaliswa kofuzo okuhlukahlukene kwezinhlobonhlobo zamagciwane, ahlanganisa ama-eukaryote kuya kuma-prokaryotes nama-virus, endaweni yemvelo efana nomhlabathi, amanzi, ulwandle, indle, namathumbu. Isevisi yethu ebanzi inika amandla abacwaningi ukuthi bahlole amaphrofayli aphelele ezinhlobo zofuzo zemiphakathi eyinkimbinkimbi. Ngaphandle kokuhlaziywa kwe-taxonomic, isevisi yethu yokulandelanisa i-metatranscriptome isiza ukuhlola ekuthuthukisweni kokusebenza, okukhanyisa izakhi zofuzo ezivezwe ngokuhlukile kanye nezindima zazo. Yembula ingcebo yemininingwane yebhayoloji njengoba uzulazula ezindaweni eziyinkimbinkimbi zokuchazwa kofuzo, ukwehlukahlukana kwe-taxonomic, namandla okusebenza ngaphakathi kwalezi zindawo ezihlukahlukene zemvelo.
-
I-Novo Fungal Genome Assembly
I-BMKGENE inikeza izixazululo eziguquguqukayo zezakhi zofuzo zesikhunta, ihlinzekela izidingo zocwaningo ezihlukahlukene kanye nokuphelela kofuzo olufiswayo. Ukusebenzisa ukulandelana kwe-Illumina yokufunda okufushane kuphela kuvumela ukukhiqizwa kwe-genome esalungiswa. Ukufunda okufushane nokufunda isikhathi eside kusetshenziswa i-Nanopore noma i-Pacbio kuhlanganiswe ukuze kube nofuzo lwesikhunta olucwengisiswe kakhulu olunama-contig amade. Ngaphezu kwalokho, ukuhlanganisa ukulandelana kwe-Hi-C kuthuthukisa futhi amandla, kuvumela ukutholwa kwegenome yeleveli ye-chromosome ephelele.
-
I-Novo Bacterial Genome Assembly
Sinikeza insizakalo ephelele yokuhlanganisa i-genome yebhaktheriya, eqinisekisa izikhala ezi-0. Lokhu kungenzeka ngokuhlanganisa ubuchwepheshe bokulandelana obufundwe isikhathi eside, obufana ne-Nanopore ne-PacBio ukuze bahlanganise futhi bafunde okufushane ngokulandelana nge-Illumina ukuze kuqinisekiswe umhlangano kanye nokulungiswa kwamaphutha okufundwa kwe-ONT. Isevisi yethu ihlinzeka ngokugeleza komsebenzi okuphelele kwe-bioinformatic kusukela ekuhlanganiseni, isichasiselo esisebenzayo, nokuhlaziya okuthuthukisiwe kwe-bioinformatic, ukufeza imigomo ethile yocwaningo. Le sevisi inika amandla ukuthuthukiswa kwenkomba yofuzo enembile yezifundo ezihlukahlukene zofuzo kanye ne-genomic. Ukwengeza, kwakha isisekelo sezinhlelo zokusebenza ezifana nokwenza kahle kobunzima, ubunjiniyela bezakhi zofuzo, nokuthuthukiswa kobuchwepheshe be-microbial, ukuqinisekisa idatha ethembekile nengenagebe ebalulekile ekuthuthukiseni ulwazi lwesayensi kanye nokuqanjwa kwe-biotechnological.
