食物欺诈 物种鉴定
-
-
-
-
https://www.mdpi.com/2304-8158/9/10/1392/htm
nanopore 非PCR 测序
Flesh ID: Nanopore Sequencing Combined with Offline BLAST Search for the Identification of Meat Source
-
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5627904/
On site DNA barcoding by nanopore sequencing
de novo组装 由于测序错误 可能不准确 所以组装后 用blast找了一个近似的更高质量的参考基因组 作为参考序列 重新做了一次有参组装 再进行物种鉴定 -
-
https://www.sciencedirect.com/science/article/pii/S1878535221001398
猪肉检测
直接Blast nr ngs reads
Table 2. Comparison of the proposed method in the current study with the previously reported methods of pork detection in foodstuff.
文章中对几个方法也做了对比
丰度偏差
Analysis pipeline for NGS data 1. Quality assessment of DNA reads using FastQC tool perl fastqc –f fastq File.fastq.gz -o out_directory/ 2. Trimming of reads using Trimmomatic tool java -jar trimmomatic.jar SE File.fastq.gz File.filterd. fastq.gz CROP:90 MINLEN:50 3. Converting the fastq into fasta format sed -n '1~4s/^@/>/p;2~4p' File.fastq > Outfile.fa or if the fastq file is in compressed format: zless File.fastq | sed -n '1~4s/^@/>/p;2~4p' > Outfile.fa 4. BLAST analysis for species matching blastn -query Input.sequences.fa -db nt -out output-blast-file -remote -subject_besthit -max_target_seqs 5 -outfmt "6 qacc qlen sseqid sacc pident nident mismatch evalue qcovhsp stitle salltitles ssciname scomname" -perc_identity 99 -
https://sci-hub.st/10.1016/j.foodcont.2020.107144
MinION sequencing of seafood in Singapore reveals creatively labelled
flatfishes, confused roe, pig DNA in squid balls, and phantom crustaceans -
https://bmcbiol.biomedcentral.com/articles/10.1186/s12915-019-0706-9
Rapid, large-scale species discovery in hyperdiverse taxa using 1D MinION sequencing
