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Metagenomic Sequencing -NGS
Lub metagenome yog ib qho kev sau ntawm tag nrho 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 genomes ntawm ob qho tib si cultivatable thiab uncultivatable microorganisms. Shotgun metagenomic sequencing nrog NGS ua rau txoj kev kawm ntawm cov genomic toj roob hauv pes zoo nkauj no kos rau hauv ib puag ncig cov qauv los ntawm kev muab ntau tshaj li kev sau seconomic profileing, muab cov kev nkag siab zoo rau cov tsiaj sib txawv, kev nplua nuj, thiab cov qauv ntawm cov pejxeem. Tshaj li cov kev tshawb fawb taxonomic, phom metagenomics tseem muaj cov kev ua haujlwm genomics foundations, ua rau kev tshawb nrhiav cov noob caj noob ces thiab lawv lub luag haujlwm tso rau hauv cov txheej txheem ecological. Thaum kawg, kev tsim cov kev sib raug zoo ntawm cov noob caj noob ces thiab ib puag ncig yam ua rau muaj kev nkag siab zoo ntawm kev sib cuam tshuam ntawm cov zej zog microbial thiab lawv cov keeb kwm ecological. Nyob rau hauv xaus, metaagenomic sequencing sawv ua ib qho tseem ceeb ntsuas rau unraveling lub genomic intricacies ntawm ntau haiv neeg microbial zej zog, illuminating lub multifaceted kev sib raug zoo ntawm noob caj noob ces thiab ecology nyob rau hauv cov complex ecosystems.
Platforms: Illumina NovaSeq thiab DNBSEQ-T7
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Metagenomic Sequencing-TGS
Lub metagenome yog ib qho kev sau 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 genomes ntawm ob qho tib si cultivatable thiab uncultivatable microorganisms. Metagenomic sequencing enables txoj kev kawm ntawm cov intricate genomic toj roob hauv pes embedded nyob rau hauv ecological qauv los ntawm muab ntau tshaj taxonomic profiling. Nws kuj tseem muab cov kev ua haujlwm genomics pom los ntawm kev tshawb nrhiav cov noob caj noob ces thiab lawv lub luag haujlwm tso rau hauv cov txheej txheem ib puag ncig. Thaum cov phom phom ib txwm siv nrog Illumina sequencing tau siv dav hauv cov kev tshawb fawb metagenomic, qhov kev tshwm sim ntawm Nanopore thiab PacBio ntev-nyeem cov sequencing tau hloov chaw. Nanopore thiab PacBio thev naus laus zis txhim kho cov kev ntsuas hauv qab ntawm bioinformatic, tshwj xeeb tshaj yog metagenome los ua ke, ua kom muaj kev sib koom ua ke txuas ntxiv. Cov ntawv ceeb toom qhia tias Nanopore-based thiab PacBio-based metagenomics tau ua tiav tiav thiab kaw cov kab mob genomes los ntawm cov microbiomes nyuaj (Moss, EL, et al., Nature Biotech, 2020). Integrating Nanopore nyeem nrog Illumina nyeem muab ib txoj hauv kev zoo rau kev kho qhov yuam kev, txo qis Nanopore qhov tseeb qhov tseeb. Qhov kev sib koom ua ke no txhawb nqa qhov muaj zog ntawm txhua qhov kev sib txuas ua ke, muab cov kev daws teeb meem zoo los kov yeej cov kev txwv muaj peev xwm thiab ua kom muaj qhov tseeb thiab kev ntseeg siab ntawm kev tshuaj ntsuam metaagenomic.
Platform: Nanopore PromethION 48, Illumia thiab PacBio Revio
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Tag nrho genome bisulfite sequencing (WGBS)
Tag Nrho Genome Bisulfite Sequencing (WGBS) yog tus qauv kub-txheej txheem rau kev tshawb nrhiav qhov tob ntawm DNA methylation, tshwj xeeb yog txoj haujlwm thib tsib hauv cytosine (5-mC), qhov tseem ceeb ntawm kev tswj cov noob qhia thiab kev ua haujlwm ntawm tes. Lub hauv paus ntsiab lus ntawm WGBS suav nrog kev kho bisulfite, ua rau kev hloov pauv ntawm unmethylated cytosines rau uracil (C rau U), thaum tawm hauv methylated cytosine tsis hloov. Cov txheej txheem no muaj kev daws teeb meem ib leeg, tso cai rau cov kws tshawb fawb los tshawb xyuas cov methylome thiab nthuav tawm cov qauv methylation txawv txav cuam tshuam nrog ntau yam mob, tshwj xeeb yog mob qog noj ntshav. Los ntawm kev ua haujlwm WGBS, cov kws tshawb fawb tuaj yeem tau txais kev nkag siab tsis sib xws rau hauv genome-wide methylation toj roob hauv pes, muab kev nkag siab zoo ntawm cov txheej txheem epigenetic uas ua rau muaj ntau yam kab mob lom neeg thiab kab mob.
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Kev ntsuam xyuas rau Transposase-Accessible Chromatin nrog High Throughput Sequencing (ATAC-seq)
ATAC-seq yog cov txheej txheem kev sib tw ua haujlwm siab uas siv rau genome-wide chromatin accessibility tsom xam. Nws siv muab kev nkag siab tob txog cov txheej txheem nyuaj ntawm kev tswj hwm lub ntiaj teb epigenetic ntawm cov noob qhia. Cov txheej txheem siv lub hyperactive Tn5 transposase rau ib txhij fragment thiab tag qhib chromatin cheeb tsam los ntawm inserting sequencing adaptors. Tom qab PCR amplification tshwm sim nyob rau hauv lub creation ntawm ib tug sequencing tsev qiv ntawv, uas tso cai rau kom paub meej qhia txog qhib chromatin cheeb tsam nyob rau hauv tej chaw-lub sij hawm tej yam kev mob. ATAC-seq muab kev pom zoo ntawm cov chaw chromatin siv tau, tsis zoo li cov txheej txheem uas tsuas yog tsom mus rau qhov chaw sib txuas lus los yog cov cheeb tsam tshwj xeeb-hloov kho. Los ntawm kev ua raws cov cheeb tsam qhib chromatin, ATAC-seq qhia cov cheeb tsam uas yuav muaj feem cuam tshuam rau cov kev cai tswj hwm thiab muaj peev xwm hloov pauv qhov cuam tshuam qhov chaw, muab kev nkag siab zoo rau hauv kev hloov pauv ntawm cov noob qhia thoob plaws genome.
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16S/18S/ITS Amplicon Sequencing-PacBio
Cov noob 16S thiab 18S rRNA, nrog rau thaj tsam Internal Transcribed Spacer (ITS), ua cov cim tseem ceeb ntawm cov ntiv tes ntiv tes vim lawv qhov sib xyaw ua ke ntawm thaj chaw ruaj khov thiab muaj qhov sib txawv, ua rau lawv cov cuab yeej muaj txiaj ntsig rau cov kab mob prokaryotic thiab eukaryotic. Amplification thiab sequencing ntawm cov cheeb tsam no muab ib qho kev cais-dawb txoj hauv kev rau kev soj ntsuam cov microbial muaj pes tsawg leeg thiab ntau haiv neeg nyob rau hauv ntau yam ecosystems. Thaum Illumina sequencing feem ntau yog lub hom phiaj luv luv hypervariable cheeb tsam xws li V3-V4 ntawm 16S thiab ITS1, nws tau pom tias zoo dua taxonomic annotation yog ua tiav los ntawm kev ua tiav qhov ntev ntawm 16S, 18S, thiab ITS. Qhov kev qhia dav dav no ua rau muaj feem pua ntawm cov kev faib tawm kom raug, ua tiav qib kev daws teeb meem uas txuas mus rau kev txheeb xyuas hom. PacBio's Single-Molecule Real-Time (SMRT) sequencing platform sawv tawm los ntawm kev muab cov ntawv nyeem ntev heev (HiFi) uas npog tag nrho-ntev amplicons, rivaling qhov tseeb ntawm Illumina sequencing. Qhov kev muaj peev xwm no tso cai rau cov kws tshawb fawb kom tau txais qhov txiaj ntsig tsis sib xws - pom qhov pom ntawm cov noob caj noob ces. Qhov kev pab cuam txuas ntxiv txhawb nqa qhov kev daws teeb meem hauv hom lus piav qhia, tshwj xeeb tshaj yog nyob rau hauv cov kab mob los yog cov kab mob fungal, ua kom nkag siab tob txog qhov tsis sib xws ntawm cov kab mob microbial.
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16S/18S/ITS Amplicon Sequencing-NGS
Amplicon sequencing nrog Illumina thev naus laus zis, tshwj xeeb tshaj yog tsom rau 16S, 18S, thiab ITS cov cim caj ces, yog ib txoj hauv kev muaj zog rau kev tshem tawm phylogeny, taxonomy, thiab hom kev nplua nuj nyob hauv cov zej zog microbial. Txoj hauv kev no suav nrog kev ua raws cov cheeb tsam hypervariable ntawm kev tu vaj tse genetic markers. Keeb kwm qhia ua tus ntiv tes molecular los ntawmWoes et alHauv xyoo 1977, cov txheej txheem no tau hloov pauv microbiome profile los ntawm kev ua kom muaj kev tshuaj xyuas tsis pub muaj kev sib cais. Los ntawm kev sib sau ua ke ntawm 16S (cov kab mob), 18S (fungi), thiab Internal Transcribed Spacer (ITS, fungi), cov kws tshawb fawb tuaj yeem txheeb xyuas tsis tau tsuas yog ntau hom tsiaj xwb tab sis kuj tsis tshua muaj thiab tsis pom. Kev siv dav dav los ua cov cuab yeej tseem ceeb, amplicon sequencing tau dhau los ua qhov tseem ceeb hauv kev txiav txim siab qhov sib txawv ntawm cov kab mob microbial nyob rau ntau qhov chaw, suav nrog tib neeg lub qhov ncauj, plab hnyuv, quav, thiab tshaj.
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Cov kab mob thiab cov kab mob fungal tag nrho genome Re-Sequencing
Cov kab mob thiab cov kab mob fungal tag nrho-genome re-sequencing tej yaam num yog qhov tseem ceeb rau kev nce qib microbial genomics los ntawm kev ua kom tiav thiab sib piv ntawm microbial genomes. Qhov no pab txhawb kev fermentation engineering, kev ua kom zoo ntawm cov txheej txheem kev lag luam, thiab tshawb nrhiav cov txheej txheem metabolic theem nrab. Tsis tas li ntawd, cov kab mob fungal thiab kab mob rov ua dua yog qhov tseem ceeb rau kev nkag siab txog kev hloov pauv ib puag ncig, txhim kho cov kab mob, thiab nthuav tawm cov kev hloov pauv ntawm cov noob caj noob ces, nrog rau kev cuam tshuam dav hauv tshuaj, kev ua liaj ua teb, thiab kev tshawb fawb ib puag ncig.
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PacBio-Full-ntev 16S / 18S / ITS Amplicon Sequence
Amplicon (16S / 18S / ITS) platform yog tsim los nrog ntau xyoo ntawm kev paub nyob rau hauv microbial ntau haiv neeg qhov kev tsom xam, uas muaj cov qauv kev tshuaj ntsuam xyuas thiab kev txheeb xyuas tus kheej: kev tshuaj xyuas yooj yim npog cov ntsiab lus tseem ceeb ntawm kev tshawb fawb microbial tam sim no, cov ntsiab lus tsom xam yog nplua nuj thiab ua tiav, thiab kev soj ntsuam cov txiaj ntsig tau nthuav tawm hauv daim ntawv qhia txog qhov project; Cov ntsiab lus ntawm kev txheeb xyuas tus kheej muaj ntau yam. Cov qauv tuaj yeem xaiv tau thiab tsis tuaj yeem teeb tsa tau yooj yim raws li daim ntawv qhia kev txheeb xyuas thiab kev tshawb fawb lub hom phiaj, kom paub txog cov kev xav tau ntawm tus kheej. Windows operating system, yooj yim thiab ceev.
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PacBio-Full-length Transcriptome (Tsis Siv Neeg)
Noj Pacific Biosciences (PacBio) Isoform sequencing cov ntaub ntawv raws li kev tawm tswv yim, App no muaj peev xwm txheeb xyuas cov ntaub ntawv sau ua ntu zus (tsis muaj kev sib dhos). Los ntawm daim ntawv qhia tag nrho-ntev ib ntus tawm tsam kev siv genome, cov ntawv sau tuaj yeem ua kom zoo dua los ntawm cov noob caj noob ces, cov ntawv sau tseg, cov cheeb tsam coding, thiab lwm yam. Nyob rau hauv rooj plaub no, kev txheeb xyuas qhov tseeb dua ntawm mRNA cov qauv, xws li lwm txoj kev sib txuas, thiab lwm yam, tuaj yeem ua tiav. Kev sib koom ua ke nrog NGS cov ntaub ntawv teev cov ntaub ntawv sib txuas ua kom muaj ntau cov lus piav qhia thiab kev txheeb xyuas qhov tseeb ntau dua hauv kev qhia ntawm qib ntawv sau, uas feem ntau tau txais txiaj ntsig zoo hauv nqe lus sib txawv thiab kev tshuaj xyuas ua haujlwm.
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Txo Cov Neeg Sawv Cev Bisulfite Sequencing (RRBS)
Txo Cov Neeg Sawv Cev Bisulfite Sequencing (RRBS) tau tshwm sim los ua tus nqi tsim nyog thiab muaj txiaj ntsig zoo rau Whole Genome Bisulfite Sequencing (WGBS) hauv DNA methylation kev tshawb fawb. Thaum WGBS muab kev nkag siab zoo los ntawm kev tshuaj xyuas tag nrho cov genome ntawm ib qho kev daws teeb meem, nws tus nqi siab tuaj yeem yog qhov txwv. RRBS tau tawm tswv yim txo qhov kev sib tw no los ntawm kev xaiv kev tshuaj xyuas ib feem ntawm cov genome. Cov txheej txheem no tso siab rau kev txhawb nqa ntawm CpG cov kob-nplua nuj cheeb tsam los ntawm MspI cleavage ua raws li kev xaiv loj ntawm 200-500/600 bps fragments. Yog li ntawd, tsuas yog thaj tsam ze rau CpG Islands tuaj, thaum cov Islands tuaj CpG nyob deb tsis suav nrog kev tshuaj xyuas. Cov txheej txheem no, ua ke nrog bisulfite sequencing, tso cai rau cov kev daws teeb meem siab ntawm DNA methylation, thiab kev sib txuas ua ke, PE150, tsom tshwj xeeb rau qhov kawg ntawm cov ntawv ntxig es tsis yog nruab nrab, ua kom cov txiaj ntsig ntawm methylation profileing. RRBS yog ib qho cuab yeej tseem ceeb uas ua rau muaj txiaj ntsig zoo DNA methylation tshawb fawb thiab txhawb kev paub txog cov txheej txheem epigenetic.
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Prokaryotic RNA Sequencing
RNA sequencing txhawb nqa cov kev qhia dav dav ntawm txhua RNA cov ntawv teev lus hauv cov hlwb hauv cov xwm txheej tshwj xeeb. Qhov kev siv thev naus laus zis no ua haujlwm zoo li cov cuab yeej muaj zog, nthuav tawm cov kab lus sib txawv ntawm cov noob caj noob ces, cov qauv noob, thiab cov txheej txheem molecular cuam tshuam nrog ntau yam txheej txheem lom neeg. Kev siv dav dav hauv kev tshawb fawb, kev kuaj mob, thiab kev txhim kho tshuaj, RNA sequencing muab kev nkag siab txog qhov tsis sib xws ntawm cov cellular dynamics thiab kev tswj caj ces. Peb cov prokaryotic RNA qauv ua qauv yog tsim rau prokaryotic transcriptomes, nrog rau rRNA depletion thiab kev npaj lub tsev qiv ntawv.
Platform: Illumina NovaSeq
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Metatranscriptome Sequencing
Leveraging Illumina sequencing technology, BMKGENE's metatranscriptome sequencing service unveils the dynamic gene expression of a diverse array of microbes, spanning eukaryotes to prokaryotes and viruses, in natural environments xws li av, dej, hiav txwv, quav, thiab plab. Peb cov kev pabcuam dav dav txhawb nqa cov kws tshawb fawb kom nkag siab mus rau hauv cov zej zog microbial nyuaj 'ua tiav gene qhia profiles. Tshaj li kev txheeb xyuas taxonomic, peb cov kev pabcuam metatranscriptome ua kom yooj yim rau kev tshawb nrhiav rau hauv kev ua kom muaj txiaj ntsig zoo, ua rau lub teeb pom kev sib txawv ntawm cov noob thiab lawv lub luag haujlwm. Tshawb nrhiav ntau yam kev paub txog kev lom neeg thaum koj taug kev cov toj roob hauv pes nyuaj ntawm cov noob qhia, kev muaj ntau haiv neeg, thiab kev ua haujlwm zoo nyob rau hauv cov kev sib txawv ntawm ib puag ncig niches.
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De Novo Fungal Genome Assembly
BMKGENE muaj ntau yam kev daws teeb meem rau fungal genomes, catering rau ntau yam kev tshawb fawb xav tau thiab xav tau genome tiav. Siv luv-nyeem Illumina sequencing ib leeg tso cai rau tiam ntawm cov ntawv sau genome. Kev nyeem luv luv thiab nyeem ntev ua ke siv Nanopore lossis Pacbio tau ua ke rau cov kab mob fungal ntau dua nrog cov kab mob ntev dua. Ntxiv mus, kev sib koom ua ke Hi-C sequencing ntxiv txhim kho lub peev xwm, ua kom muaj kev ua tiav ntawm chromosome-theem genome.
