DNA sequences of Bemisia tabaci, endosymbionts, haplotype data
Data files
Sep 08, 2026 version files 273.35 KB
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B_tabaci_sequences.fsta
42.80 KB
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Endosymbionts_sequences.txt
6.05 KB
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Haplo_final.nexus
104.54 KB
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HAPLOTYPE.meg
103.99 KB
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HAPLOTYPE1.txt
4.64 KB
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README.md
5.08 KB
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RESULTS.nex
6.25 KB
Abstract
The sweet potato whitefly, Bemisiatabaci (Gennadius) (Hemiptera: Aleyrodidae) is a polyphagous, phloem sap-feeding pest of highly economically important crops. This pest infests more than 600 horticultural and agricultural crops.It is thought to be a complex of physically similar cryptic species with variations in their genetic, physiological, and biological characteristics. In the present study, the incidence of the cryptic species B. tabaci and the viruliferous nature of whiteflies with Begomovirus in cucurbitaceous crops from seven agroclimatic zones of Tamil Nadu were assessed. Based on the available sequence data, we report the occurrence of four major cryptic species of whiteflies recorded in Tamil Nadu. The identified cryptic species of B. tabaci, viz., Asia I, Asia II (5), Asia II (7), and Asia II (8) were observed in all twenty-two locations in Tamil Nadu. The predominant occurrence of B. tabaci Asia I was recorded in three agroclimatic zones, viz., the western, northwestern and high rainfall zones of Tamil Nadu. Asia II (5) was detected in all six agroclimatic zones, while Asia-II (8) was detected in the western, north western and southern zones of Tamil Nadu. Asia II (7) was the only cryptic species recorded in the western zoneof Tamil Nadu.Studies on endosymbiont associations with these whiteflies revealed the presence of Portiera (PP593660), Fritchea (PP600138), Cardinium (PP600148), Hamiltonella (PP593664), Wolbachia (PP593662), and Rickettsia (PP590220) in the reported cryptic species of B. tabaci. Hap_2, hap_14, hap_35, hap_42, hap_79, and hap_80 were the haplotypes of B. tabacion cucurbitaceous crops in Tamil Nadu. Asia II (5) exhibited the highest haplotype diversity, and Asia I showed a high level of nucleotide diversity. These results will be useful for understanding outbreaks of B. tabaci and developing efficient management strategies for viruses that are transmitted by B. tabaci.
Dataset DOI: 10.5061/dryad.h44j0zpwm
Description of the data and file structure
In order to sequence and characterize the whitefly (Bemisia tabaci) and their endosymbionts. Haplotype analysis was also done.
This dataset contains nucleotide sequence data used for the molecular characterization of Bemisia tabaci and its associated bacterial endosymbionts, together with sequence alignments and files used for haplotype analysis.
The B. tabaci dataset contains study sequences together with reference sequences representing different Bemisia tabaci genetic groups/cryptic species and related whitefly taxa used for comparison. The study sequences are identified by GenBank accession numbers and include information on sampling location and host plant where available.
The endosymbiont dataset contains partial 16S rRNA gene sequences representing bacterial endosymbionts associated with B. tabaci. Haplotype-analysis files are provided in MEGA, NEXUS, and text formats.
Files and variables
1. B_tabaci_sequences.fsta
FASTA-formatted nucleotide sequence file containing 50 whitefly sequences.
The file includes:
- Study-derived Bemisia tabaci sequences identified by GenBank accession number, sampling location, and cucurbit host where available.
- Reference sequences representing different B. tabaci genetic groups/cryptic species.
- Related whitefly taxa included for comparative or outgroup analysis.
Each sequence begins with a FASTA header (>), followed by the corresponding nucleotide sequence.
2. Endosymbionts_sequences.txt
FASTA-formatted file containing six partial 16S rRNA gene sequences of bacterial endosymbionts associated with Bemisia tabaci.
The endosymbionts represented are:
- Candidatus Portiera aleyrodidarum
- Rickettsia bellii
- Wolbachia endosymbiont of Bemisia tabaci
- Candidatus Cardinium hertigii
- Candidatus Fritschea sp.
- Candidatus Hamiltonella defensa
Sequence headers contain the corresponding GenBank accession numbers and isolate information.
3. HAPLOTYPE.meg
Multiple-sequence alignment in MEGA format used as an input dataset for haplotype analysis.
The file contains aligned nucleotide sequences representing B. tabaci genetic groups from different geographic regions together with the study sequences. Alignment gaps are represented by hyphens (-).
This file can be opened using MEGA-compatible software.
4. Haplo_final.nexus
NEXUS-formatted aligned sequence dataset used for haplotype/population analysis.
The file contains 114 taxa and an aligned sequence region of 838 nucleotide characters. Taxon labels identify the B. tabaci genetic group, geographic origin, and/or study accession where available.
This file can be used with software that supports the NEXUS format for phylogenetic, population-genetic, or haplotype-network analyses.
5. HAPLOTYPE1.txt
Haplotype frequency/distribution table.
The file contains 80 haplotypes (Hap_1 to Hap_80) and their occurrence across 23 B. tabaci genetic groups, including Asia I, Asia II subgroups, Asia III, China groups, Indian Ocean, Mediterranean, Middle East-Asia Minor I (MEAM I), New World I, Sub-Saharan Africa I, and Uganda I.
Values in the table represent the number of sequences assigned to each haplotype within the corresponding genetic group.
6. RESULTS.nex
NEXUS output generated using DnaSP version 6.12.03.
The file contains DnaSP-generated haplotype information derived from the aligned sequence dataset. It includes the sequence region analysed, haplotype assignment information, and NEXUS-formatted sequence data for downstream analysis.
7. README.md
README file describing the dataset, file contents, formats, and software used.
Sequence identifiers
Where available, sequence names contain:
GenBank accession number – sampling location – host plant
Examples include study sequences collected from ridge gourd, bitter gourd, pumpkin, cucumber, snake gourd, chayote, and other hosts.
Reference sequence names generally indicate the corresponding B. tabaci genetic group and geographic origin.
File formats
.fsta– FASTA nucleotide sequence format.txt– plain-text sequence or haplotype-frequency data.meg– MEGA sequence alignment format.nexus/.nex– NEXUS sequence and haplotype-analysis format.md– Markdown README file
Software and access information
Haplotype analysis was performed using DnaSP.
Sequence alignment and/or sequence-format preparation used MEGA-compatible files.
The RESULTS.nex file records DnaSP version 6.12.03.
The sequence files provide the nucleotide data used for molecular identification and comparison of Bemisia tabaci and its associated bacterial endosymbionts.
The haplotype files provide the aligned sequence data and haplotype distributions used to examine genetic variation among B. tabaci genetic groups and study samples.