Phylogenetic analysis of pigeonpea (Cajanus cajan) genotypes using Panzee retrotransposon based SSAP markers

PRAKASH PATIL; S DATTA; I P SINGH; ALOK DAS; K R SOREN; M KAASHYAP; A K CHOUDHARY; S K CHATURVEDI; N NADARAJAN

doi:10.56093/ijas.v82i12.26183

Authors

PRAKASH PATIL Indian Institute of Pulses Research, Kanpur, Uttar Pradesh
S DATTA Indian Institute of Pulses Research, Kanpur, Uttar Pradesh
I P SINGH Indian Institute of Pulses Research, Kanpur, Uttar Pradesh
ALOK DAS Indian Institute of Pulses Research, Kanpur, Uttar Pradesh
K R SOREN Indian Institute of Pulses Research, Kanpur, Uttar Pradesh
M KAASHYAP Indian Institute of Pulses Research, Kanpur, Uttar Pradesh
A K CHOUDHARY Indian Institute of Pulses Research, Kanpur, Uttar Pradesh
S K CHATURVEDI Indian Institute of Pulses Research, Kanpur, Uttar Pradesh
N NADARAJAN Indian Institute of Pulses Research, Kanpur, Uttar Pradesh

https://doi.org/10.56093/ijas.v82i12.26183

Keywords:

Phylogentic studies, Pigeonpea, SSAP markers

Abstract

In the present study, twenty one pigeonpea [Cajanus cajan (L.) Millspaugh] genotypes representing three different gene pools were analysed for phylogenetic relationships using sequence specific amplification polymorphism markers. Four primers were screened involving selective AFLP primers in combination with primer specific to 5'LTR region of Panzee retrotransposon. A total of 183 bands were scored, out of which 166 (90.71%) bands were polymorphic with an average of 41.5 polymorphic bands per primer combination. Polymorphism information content (PIC) values ranged from 0.15 [Panzee-LTR/ EcoRI (+AAC)] to 0.26 [Panzee-LTR/ EcoRI (+AAG)] for four primer combinations. Resolving power (RP) values ranged from 10.14 [Panzee-LTR/ EcoRI (+AAC)] to 24.92 [Panzee-LTR/ MseI (+CAC)], whereas marker index (MI) values ranged from 5.25 [Panzee-LTR/ EcoRI (+AAC)] to 14.25 [Panzee-LTR/ MseI (+CAC)] exhibiting positive correlation (r2=0.99 P<0.05). Primer Panzee-LTR/ MseI (+CAC) with higher values of RP (24.92) and MI (14.25) was found most informative for analysing the phylogenetic relationships. NJ tree based on 166 polymorphic SSAP markers exhibited concordant relationships among pigeonpea genotypes supported by high bootstrap values. The genotypes belonging to tertiary gene pools and primary gene pool were placed at extremes, whereas one accession of C. cajanifolius (ICP 15632) was placed closer to primary gene pool, confirming C. cajanifolius is the closest progenitor of cultivated pigeonpea. SSAP markers produced high rate of polymorphism and revealed phylogenetic relationships among pigeonpea genotypes.

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Author Biographies

PRAKASH PATIL, Indian Institute of Pulses Research, Kanpur, Uttar Pradesh

Scientist
S DATTA, Indian Institute of Pulses Research, Kanpur, Uttar Pradesh

Senior Scientist
I P SINGH, Indian Institute of Pulses Research, Kanpur, Uttar Pradesh

Principal Scientist
ALOK DAS, Indian Institute of Pulses Research, Kanpur, Uttar Pradesh

Scientist
K R SOREN, Indian Institute of Pulses Research, Kanpur, Uttar Pradesh

Scientist
M KAASHYAP, Indian Institute of Pulses Research, Kanpur, Uttar Pradesh

Senior Research Fellow
A K CHOUDHARY, Indian Institute of Pulses Research, Kanpur, Uttar Pradesh

Senior Scientist
S K CHATURVEDI, Indian Institute of Pulses Research, Kanpur, Uttar Pradesh

Principal Scientist
N NADARAJAN, Indian Institute of Pulses Research, Kanpur, Uttar Pradesh

Director

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