期刊名称：International Journal of Multimedia and Ubiquitous Engineering
印刷版ISSN：1975-0080
出版年度：2015
卷号：10
期号：10
页码：67-74
DOI：10.14257/ijmue.2015.10.10.07
出版社：SERSC
摘要：DNA barcoding involve rapidly sequencing the standardized region from the genome for species identification and this homologous sequence information plays an important role to resolve the phylogenetic issues. However in case of complex groups, incorporation of insertion and deletion (Indel) informative sites in DNA barcode sequences are becoming more important due to low substitution rate. Indels are largely ignored in phylogenetics analysis and removed from sequence alignment assigning them a missing data. We review the current trends on mining the indels analysis, focusing especially on the topics of rapidly evolving indel containing loci and methods of indel treatment for phylogenetic relationship. Among the indel coding methods, Simple indel coding is easy to implement in indels contain sequences. But, this method does not utilized the all the available information and Complex Indel Coding rules are very difficult to translate into a clearly formulate algorithm for determining the values. But this coding method suffers from internal inconsistence when a long indel has a number of shorter subset indel and triangular in equality exists. However, SIDIER software package infer evolutionary relationships based on both the indels and substitutions. SIDIER is promising software for intra and inter specific calculation in DNA barcode studies as well as to infer phylogenetic relationships.
