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To confirm the disomy for LG 1 in progeny isolate #51, we performed PCR assays based on deletion polymorphisms (Figure 2E, Table S6) identified by comparative analyses of IPO94269 BAC-end sequences with the draft genome sequence (v.2.5) of IPO323.
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More recently different lineages of M. tuberculosis have been described, based on deletions and single nucleotide polymorphisms (SNPs).
In peripheral blood DNA macrochimerism (usually more than 10% of foreign cells) induced by hematopoietic stem cell transplantation, new assays have been proposed for all donor recipient type based on biallelic deletion insertion polymorphisms (DIP) polymorphisms and null alleles [Alizadeh et al., 2002; Jimenez-Velasco et al., 2005].
Most sequence-based rice genome analyses are based on DNA polymorphisms, single nucleotide polymorphisms (SNPs) and insertion-deletions (InDels).
Type M was further divided into 33 subtypes based on single nucleotide polymorphisms, single nucleotide deletion (V12), double nucleotide deletion (V19) and single nucleotide insertion (V20) (Tables 3, 4).
We have developed a multiplex PCR assay designed to establish the biogeographic ancestry of forensic DNA samples based on insertion/deletion polymorphisms.
Sequence analysis of the pi21 blast resistance gene from a number of cultivars identified 12 alleles (based on insertion deletion polymorphisms in the region) that might be involved with the protein's function (Fukuoka et al. 2009).
The Pi9-Pro marker was developed based on InDel polymorphisms.
For genotyping, simple sequence repeat (SSR) markers evenly distributed over the 12 chromosomes Temnykh et al. 2001; McCouch et al. 2002; International Rice Genome Sequencing Project 2005) and InDel markers designed based on the insertion-deletion polymorphism between YXZ and SBSM were used.
Expressed sequence tags (ESTs) are an important source of gene-based markers such as those based on insertion-deletions (Indels) or single-nucleotide polymorphisms (SNPs).
Consistent with our analysis of conversion tracts based on very localized polymorphisms, we also found that deletions of hundreds of base pairs were readily converted from donors into the ry target.
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