DOI: 10.5061/dryad.hmgqnk9pb
title: Data from: Conservation genetics of Notelaea lloydii (Oleaceae) in south-eastern Queensland, Australia

description: Habitat fragmentation can increase the chance of population bottlenecks
 and inbreeding, and may ultimately lead to reduced fitness and local
 extinction. Notelaea lloydii is a native olive species endemic to
 Australia and listed as vulnerable due to its restricted
 distribution.  A recent molecular systematics study has revealed
 there might be some geographic structuring among the N. lloydii
 populations. Therefore, we undertook a genome wide Single Nucleotide
 Polymorphism (SNP) analysis to determine levels and patterns of genetic
 diversity, inbreeding and gene flow within and among N. lloydii
 populations in south-eastern Queensland (SE-QLD). Furthermore, as the
 reproductive phase of a plant’s life history has a profound influence on
 genetic diversity, life history reproductive traits were also studied. Our
 SNP analysis revealed low genetic diversity, inbreeding and significant
 genetic structuring even among proximate populations. Results of a flower
 and fruit bagging experiment in two consecutive seasons revealed that N.
 lloydii produced many flowers but only a few fruits survived to maturity.
 There were no differences in bagged and un-bagged flowering and fruiting
 rates and therefore, we conclude that the high fruit abortion rate was
 probably due to inbreeding depression and/or suboptimal conditions, rather
 than pollinator availability and insect attack. Overall, results of this
 study indicate that the populations of N. lloydii are small, inbred and
 genetically isolated and represent unique management units that require
 local conservation management due to ongoing threats associated with
 urbanisation.
description: Genomic DNA of 123 individuals were sent to DArT analysis
 facility (DArT Pty Ltd., Canberra, Australia) for DArTseq high-density
 genotyping and the results of the SNP calling were obtained as a
 matrix.
description: Data set can be opened and analysed using the DArTR package in
 the R platform.
description: # SNP Data: N-lloydii Manawaduge et. al. This is the SNP data set that was
 used in the manuscript "Conservation genetics of Notelaea lloydii
 (Oleaceae) in south-eastern Queensland, Australia " ## Description of
 the data and file structure File Format: SNP 1 Row Mapping Format:
 "0" = Reference allele homozygote, "1" = SNP allele
 homozygote, "2"= heterozygote and "-" = double
 null/null allele homozygote (absence of fragment with SNP in genomic
 representation) Metadata columns: AlleleID:Unique identifier for the
 sequence in which the SNP marker occurs SNP:In 1 row format: contains the
 base position and base variant details SnpPosition:The position (zero
 indexed) in the sequence tag at which the defined SNP variant base occurs
 CallRate:The proportion of samples for which the genotype call is either
 "1" or "0", rather than "-" AvgPIC:The
 average of the polymorphism information content (PIC) of the Reference and
 SNP allele rows RepAvg:The proportion of technical replicate assay pairs
 for which the marker score is consistent ## Sharing/Access information
 Data was derived from the following sources: Diversity Arrays Technology
 Pty Ltd ()