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16s

NCBI SRA #PRJEB27564

sratoolkit.3.1.1-centos_linux64/bin/fastq-dump --split-3  ERR3040013
sratoolkit.3.1.1-centos_linux64/bin/fastq-dump --split-3  ERR2730388

Aho V T E, Pereira P A B, Voutilainen S, et al. Gut microbiota in Parkinson's disease: temporal stability and relations to disease progression[J]. EBioMedicine, 2019, 44: 691-707.

CO1

NCBI SRA #PRJNA545426

sratoolkit.3.1.1-centos_linux64/bin/fastq-dump --split-3 SRR9185139
sratoolkit.3.1.1-centos_linux64/bin/fastq-dump --split-3 SRR9185140
sratoolkit.3.1.1-centos_linux64/bin/fastq-dump --split-3 SRR9185142

Hajibabaei M, Porter T M, Wright M, et al. COI metabarcoding primer choice affects richness and recovery of indicator taxa in freshwater systems[J]. PLoS One, 2019, 14(9): e0220953.

12s

NCBI SRA #PRJDB3526

sratoolkit.3.1.1-centos_linux64/bin/fastq-dump --split-3  DRR030411
sratoolkit.3.1.1-centos_linux64/bin/fastq-dump --split-3  DRR030422

Miya M, Sato Y, Fukunaga T, et al. MiFish, a set of universal PCR primers for metabarcoding environmental DNA from fishes: detection of more than 230 subtropical marine species[J]. Royal Society open science, 2015, 2(7): 150088.

18s

NCBI SRA #PRJNA592034

#v9
sratoolkit.3.1.1-centos_linux64/bin/fastq-dump --split-3 SRR12793466
sratoolkit.3.1.1-centos_linux64/bin/fastq-dump --split-3 SRR12793467
#v4
sratoolkit.3.1.1-centos_linux64/bin/fastq-dump --split-3 SRR12793385
sratoolkit.3.1.1-centos_linux64/bin/fastq-dump --split-3 SRR12793390

Choi J, Park J S. Comparative analyses of the V4 and V9 regions of 18S rDNA for the extant eukaryotic community using the Illumina platform[J]. Scientific Reports, 2020, 10(1): 6519.

ITS

NCBI SRA #PRJNA1055419

#primer:ITS4_ILL and gITS7_ILL   

sratoolkit.3.1.1-centos_linux64/bin/fastq-dump --split-3 SRR30683883
sratoolkit.3.1.1-centos_linux64/bin/fastq-dump --split-3 SRR30683886

Rzehak T, Praeg N, Galla G, et al. Comparison of commonly used software pipelines for analyzing fungal metabarcoding data[J]. BMC genomics, 2024, 25(1): 1085.

rbcL

NCBI SRA #PRJNA650007

primer:

rbcL2-F
    rbcL2 forward	5’-TGGCAGCATTYCGAGTAACTC-3’

Palmieri L, Bozza E, Giongo L. Soft fruit traceability in food matrices using real-time PCR[J]. Nutrients, 2009, 1(2): 316-328.

rbcLa-R
    rbcL-a a_r CTTCTGCTACAAATAAGAATCGATCTC

Kress W J, Erickson D L. A two-locus global DNA barcode for land plants: the coding rbcL gene complements the non-coding trnH-psbA spacer region[J]. PLoS one, 2007, 2(6): e508.

sratoolkit.3.1.1-centos_linux64/bin/fastq-dump --split-3 SRR12374561
sratoolkit.3.1.1-centos_linux64/bin/fastq-dump --split-3 SRR12374563

Urumarudappa S K J, Tungphatthong C, Prombutara P, et al. DNA metabarcoding to unravel plant species composition in selected herbal medicines on the National List of Essential Medicines (NLEM) of Thailand[J]. Scientific Reports, 2020, 10(1): 18259.