Whole genome resequencing data of four Indian mandarin genotypes: Extending our understanding of citrus genomics

Abstract

Mandarin orange (Citrus reticulata Blanco) is the most common citrus fruit, covering nearly 42 % of the total citrus cultivation area in India. The main varieties of mandarin oranges cultivated in India include Nagpur Mandarin, Khasi Mandarin, Coorg Mandarin and Sikkim Mandarin. Globally, genomic data is being used to unravel the complexities and mysteries of citrus taxonomy. However, despite India being a primary centre of citrus origin, these valuable genomic resources remain underutilized. Here, we conducted whole genome resequencing of four mandarin genotypes viz., Nagpur Mandarin (22,861,254 bp raw reads), Sikkim Mandarin (24,160,847 bp raw reads), Coorg Mandarin (27,974,860 bp raw reads), and Khasi Mandarin (40,532,383 bp raw reads) using Illumina Novaseq 6000 sequencing platform with 28x sequencing coverage. These genomic sequences will provide valuable insights into the taxonomic complexities and evolutionary history of mandarin oranges. The identified SNPs can further be used to study the evolution of flowering patterns in citrus, especially under tropical and subtropical conditions. The NGS data obtained (FASTQ format) for all four mandarin genotypes have been deposited in the Indian Biological Data Centre (https://ibdc.dbtindia.gov.in/inda/submittedStudyHome) under INDA study Id INRP000149. The sample accession numbers are INS0004744 (Sikkim Mandarin), INS0004745 (Nagpur Mandarin), INS0004746 (Coorg Mandarin), INS0004747 (Khasi Mandarin).

Keywords

• Genomic resource
• Evolution
• Taxonomy
• Trait
• Fruit
• Flower