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Kev Tshawb Fawb Txog Metagenomic -NGS
Ib qho metagenome yog ib qho kev sib sau ua ke ntawm tag nrho cov khoom siv caj ces ntawm ib lub zej zog sib xyaw ntawm cov kab mob, xws li ib puag ncig thiab tib neeg metagenomes. Nws muaj cov genomes ntawm ob qho tib si cog tau thiab tsis cog tau. Shotgun metagenomic sequencing nrog NGS ua rau kev kawm txog cov toj roob hauv pes genomic nyuaj no uas tau muab tso rau hauv cov qauv ib puag ncig los ntawm kev muab ntau dua li kev txheeb xyuas taxonomic, muab kev nkag siab tob txog ntau haiv neeg, kev nplua nuj dynamics, thiab cov qauv pej xeem nyuaj. Dhau li ntawm kev tshawb fawb taxonomic, shotgun metagenomics kuj muab kev pom genomics ua haujlwm, ua rau kev tshawb nrhiav cov noob encoded thiab lawv lub luag haujlwm hauv cov txheej txheem ecological. Thaum kawg, kev tsim cov tes hauj lwm sib raug zoo ntawm cov ntsiab lus genetic thiab cov yam ntxwv ib puag ncig pab txhawb rau kev nkag siab holistic ntawm kev sib cuam tshuam nyuaj ntawm cov zej zog microbial thiab lawv keeb kwm yav dhau los ecological. Hauv kev xaus, metagenomic sequencing sawv cev rau lub cuab yeej tseem ceeb rau kev daws cov genomic intricacies ntawm ntau haiv neeg microbial, qhia txog kev sib raug zoo ntawm ntau yam genetics thiab ecology hauv cov ecosystem nyuaj no.
Cov platforms: Illumina NovaSeq thiab DNBSEQ-T7
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Kev Tshawb Fawb Txog Metagenomic-TGS
Ib qho metagenome yog ib qho kev sib sau ua ke ntawm cov khoom siv caj ces ntawm cov zej zog sib xyaw ntawm cov kab mob, xws li ib puag ncig thiab tib neeg metagenomes. Nws muaj cov genomes ntawm ob qho tib si cultivatable thiab uncultivatable microorganisms. Metagenomic sequencing ua rau kev kawm txog cov toj roob hauv pes genomic complex no embedded hauv cov qauv ecological los ntawm kev muab ntau dua li taxonomic profiling. Nws kuj muab ib qho kev xav genomics ua haujlwm los ntawm kev tshawb nrhiav cov noob encoded thiab lawv lub luag haujlwm putative hauv cov txheej txheem ib puag ncig. Thaum cov txheej txheem shotgun ib txwm muaj nrog Illumina sequencing tau siv dav hauv kev tshawb fawb metagenomic, qhov tshwm sim ntawm Nanopore thiab PacBio ntev-nyeem sequencing tau hloov pauv thaj chaw. Nanopore thiab PacBio thev naus laus zis txhim kho kev tshuaj xyuas bioinformatic downstream, tshwj xeeb tshaj yog metagenome sib dhos, ua kom ntseeg tau tias muaj kev sib dhos txuas ntxiv. Cov ntawv qhia qhia tias Nanopore-based thiab PacBio-based metagenomics tau ua tiav tsim cov genomes kab mob tiav thiab kaw los ntawm cov microbiomes nyuaj (Moss, EL, et al., Nature Biotech, 2020). Kev sib xyaw Nanopore nyeem nrog Illumina nyeem muab txoj hauv kev zoo rau kev kho qhov yuam kev, txo qhov tseeb qis ntawm Nanopore. Qhov kev sib xyaw ua ke no siv lub zog ntawm txhua lub platform sequencing, muab kev daws teeb meem zoo los kov yeej cov kev txwv thiab txhim kho qhov tseeb thiab kev ntseeg tau ntawm kev tshuaj xyuas metagenomic.
Platform: Nanopore PromethION 48, Illumia thiab PacBio Revio
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16S/18S/ITS Amplicon Sequencing-PacBio
Cov noob caj noob ces rRNA 16S thiab 18S, nrog rau thaj tsam Internal Transcribed Spacer (ITS), ua haujlwm ua cov cim qhia txog cov cim ntiv tes molecular tseem ceeb vim lawv muaj kev sib xyaw ua ke ntawm cov cheeb tsam uas tau khaws cia thiab hloov pauv ntau heev, ua rau lawv muaj cov cuab yeej tseem ceeb rau kev piav qhia txog cov kab mob prokaryotic thiab eukaryotic. Kev nthuav dav thiab kev txheeb xyuas cov cheeb tsam no muab txoj hauv kev tsis muaj kev sib cais rau kev tshawb nrhiav cov kab mob me me thiab kev sib txawv thoob plaws ntau yam ecosystem. Thaum Illumina sequencing feem ntau tsom mus rau cov cheeb tsam luv luv hypervariable xws li V3-V4 ntawm 16S thiab ITS1, nws tau pom tias cov lus piav qhia zoo dua tuaj yeem ua tiav los ntawm kev txheeb xyuas tag nrho ntawm 16S, 18S, thiab ITS. Txoj hauv kev no ua rau muaj feem pua ntau dua ntawm cov kab ke raug cais, ua tiav qib kev daws teeb meem uas nthuav dav mus rau kev txheeb xyuas hom tsiaj. PacBio lub platform sequencing Single-Molecule Real-Time (SMRT) sawv tawm los ntawm kev muab cov ntawv nyeem ntev (HiFi) uas raug heev uas npog cov amplicons tag nrho, sib tw qhov tseeb ntawm Illumina sequencing. Lub peev xwm no tso cai rau cov kws tshawb fawb kom tau txais qhov zoo sib xws - pom kev zoo nkauj ntawm thaj chaw genetic. Qhov kev npog ntev dua ua rau qhov kev daws teeb meem hauv kev sau ntawv hom tsiaj, tshwj xeeb tshaj yog hauv cov zej zog kab mob lossis fungal, ua rau nkag siab tob dua txog qhov nyuaj ntawm cov pej xeem microbial.
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16S/18S/ITS Amplicon Sequencing-NGS
Kev siv thev naus laus zis Illumina los nrhiav Amplicon sequencing, tshwj xeeb yog tsom mus rau 16S, 18S, thiab ITS genetic markers, yog ib txoj hauv kev muaj zog rau kev tshawb nrhiav phylogeny, taxonomy, thiab ntau hom tsiaj txhu hauv cov zej zog microbial. Txoj hauv kev no suav nrog kev txheeb xyuas cov cheeb tsam hypervariable ntawm cov cim genetic housekeeping. Chiv thawj tau qhia ua ib qho molecular fingerprint los ntawmWoeses thiab lwm tusxyoo 1977, cov txheej txheem no tau hloov pauv microbiome profiling los ntawm kev ua kom muaj kev tshuaj xyuas tsis muaj kev cais tawm. Los ntawm kev txheeb xyuas 16S (cov kab mob), 18S (fungi), thiab Internal Transcribed Spacer (ITS, fungi), cov kws tshawb fawb tuaj yeem txheeb xyuas tsis yog cov tsiaj txhu xwb tab sis kuj tseem muaj tsawg thiab tsis paub meej. Siv dav dav ua lub cuab yeej tseem ceeb, amplicon sequencing tau dhau los ua lub cuab yeej tseem ceeb hauv kev pom cov kab mob sib txawv thoob plaws ntau qhov chaw, suav nrog tib neeg lub qhov ncauj, txoj hnyuv, quav, thiab dhau mus.
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Kev Rov Ua Dua Tshiab ntawm Cov Kab Mob Bacterial thiab Fungal Tag Nrho Genome
Cov haujlwm rov ua dua tshiab ntawm cov kab mob bacterial thiab fungal tag nrho yog qhov tseem ceeb rau kev txhim kho cov kab mob microbial genomics los ntawm kev ua kom tiav thiab sib piv cov microbial genomes. Qhov no pab txhawb kev tsim kho fermentation, kev ua kom zoo dua ntawm cov txheej txheem kev lag luam, thiab kev tshawb nrhiav ntawm cov txheej txheem metabolism thib ob. Ntxiv mus, fungal thiab bacterial re-sequencing yog qhov tseem ceeb rau kev nkag siab txog kev hloov pauv ib puag ncig, kev ua kom zoo dua cov kab mob, thiab qhia txog kev hloov pauv ntawm cov noob caj noob ces, nrog rau kev cuam tshuam dav hauv kev kho mob, kev ua liaj ua teb, thiab kev tshawb fawb ib puag ncig.
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Kev Txheeb Xyuas Prokaryotic RNA
Kev ntsuas RNA ua rau muaj peev xwm txheeb xyuas tag nrho cov ntaub ntawv RNA hauv cov cell raws li cov xwm txheej tshwj xeeb. Cov thev naus laus zis tshiab no ua haujlwm ua lub cuab yeej muaj zog, qhia txog cov qauv qhia txog cov noob caj noob ces, cov qauv noob caj noob ces, thiab cov txheej txheem molecular uas cuam tshuam nrog ntau yam txheej txheem biological. Tau txais kev siv dav hauv kev tshawb fawb tseem ceeb, kev kuaj mob hauv tsev kho mob, thiab kev tsim tshuaj, RNA sequencing muab kev nkag siab txog qhov nyuaj ntawm cov cellular dynamics thiab kev tswj hwm noob caj noob ces. Peb cov txheej txheem prokaryotic RNA qauv yog tsim rau prokaryotic transcriptomes, uas cuam tshuam nrog rRNA depletion thiab kev npaj tsev qiv ntawv directional.
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Kev Txheeb Xyuas Metatranscriptome
Siv Illumina sequencing technology, BMKGENE's metatranscriptome sequencing service qhia txog kev qhia txog cov noob caj noob ces ntawm ntau yam microbes, xws li eukaryotes mus rau prokaryotes thiab viruses, hauv cov chaw ib puag ncig xws li av, dej, hiav txwv, quav, thiab plab hnyuv. Peb cov kev pabcuam ua tiav pab cov kws tshawb fawb nkag siab txog cov zej zog microbial uas muaj cov noob caj noob ces sib txawv. Dhau ntawm kev tshuaj xyuas taxonomic, peb cov kev pabcuam metatranscriptome sequencing pab txhawb kev tshawb nrhiav txog kev ua haujlwm zoo, ua rau pom cov noob caj noob ces sib txawv thiab lawv lub luag haujlwm. Tshawb nrhiav ntau yam kev nkag siab txog biological thaum koj mus ncig cov toj roob hauv pes nyuaj ntawm kev qhia txog noob caj noob ces, kev sib txawv ntawm taxonomic, thiab kev ua haujlwm hauv cov chaw ib puag ncig sib txawv no.
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De Novo Fungal Genome Assembly
BMKGENE muaj cov kev daws teeb meem ntau yam rau cov noob caj noob ces fungal, ua kom tau raws li ntau yam kev xav tau kev tshawb fawb thiab kev ua tiav ntawm cov noob caj noob ces. Kev siv Illumina sequencing luv luv xwb tso cai rau kev tsim cov qauv noob caj noob ces. Kev nyeem luv luv thiab kev nyeem ntev siv Nanopore lossis Pacbio raug sib xyaw ua ke rau cov noob caj noob ces fungal zoo dua nrog cov contigs ntev dua.
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De novo Bacterial Genome Assembly
Peb muab kev pabcuam sib sau ua ke ntawm cov kab mob genome tiav, lav 0 qhov sib txawv. Qhov no ua tau los ntawm kev koom ua ke cov thev naus laus zis nyeem ntev, xws li Nanopore thiab PacBio rau kev sib dhos thiab kev nyeem luv luv nrog Illumina rau kev lees paub kev sib dhos thiab kev kho qhov yuam kev ntawm ONT nyeem. Peb qhov kev pabcuam muab cov txheej txheem bioinformatic tiav los ntawm kev sib dhos, kev sau ntawv ua haujlwm, thiab kev tshuaj xyuas bioinformatic siab heev, ua tiav cov hom phiaj tshawb fawb tshwj xeeb. Qhov kev pabcuam no ua rau muaj kev txhim kho cov genomes siv tau rau ntau yam kev tshawb fawb txog genetic thiab genomic. Tsis tas li ntawd, nws tsim lub hauv paus rau cov ntawv thov xws li kev ua kom zoo dua qub, kev tsim kho genetic, thiab kev tsim kho thev naus laus zis microbial, ua kom ntseeg tau tias cov ntaub ntawv genomic txhim khu kev qha thiab tsis muaj qhov sib txawv tseem ceeb rau kev txhim kho kev nkag siab txog kev tshawb fawb thiab kev tsim kho tshiab biotechnological.
