Soil microbial functional gene dataset associated with Agathis australis

Praveenth Lawrence; Mahajabeen Padamsee; Kevin Lee; Donnabella C Lacap-Bugler

doi:10.1016/j.dib.2023.109791

Soil microbial functional gene dataset associated with Agathis australis

Data Brief. 2023 Nov 10:51:109791. doi: 10.1016/j.dib.2023.109791. eCollection 2023 Dec.

Authors

Praveenth Lawrence¹, Mahajabeen Padamsee², Kevin Lee¹, Donnabella C Lacap-Bugler¹

Affiliations

¹ School of Science, Faculty of Health and Environmental Science, Auckland University of Technology, Auckland 1010, New Zealand.
² Manaaki Whenua Landcare Research, 231 Morrin Road, Auckland 1072, New Zealand.

Abstract

Agathis australis (New Zealand kauri) is a significant and iconic native tree of Aotearoa New Zealand. Currently, Phytophthora agathidicida that causes kauri-dieback disease is killing kauri trees. Only 1% of the New Zealand virgin kauri forest remains [1,2]. Recent studies revealed that many soil-borne microorganisms had been found to systemically boost the defensive capacity of the trees by providing competition to pathogens for nutrient intake, thus preventing pathogen colonization and modulating plant immunity [3,4]. In addition, the root microbiome consists of an entire complex rhizosphere-associated microbes with their genetic elements and interactions that have influenced plant health. To date, very few studies have been conducted to investigate the microorganisms in the kauri soil and possible environmental drivers. To characterize the functional gene profile in relation to soil microbial diversity of the kauri trees at Auckland Botanic Gardens (ABG), Auckland, New Zealand the GeoChip 5.0 M (Glomics Inc. USA), a microarray-based metagenomics tool, was used. GeoChip 5.0 M comprises of 162,000 probes from 365,000 target genes (coding DNA sequence - CDS), which covers all taxonomic groups (archaea, bacteria, fungi, protists, algae, and viruses) [5]. The ABG has kauri trees that are approximately 20 years old, located in three distinct man-made environments: Native Forest, Kauri Grove, and Rose Garden. We selected two trees from the Native Forest and two from the Kauri Grove for our experiment. Soil samples were collected from the four cardinal points of each tree, at 10 cm depth. Pooled environmental DNA was sent to Glomics (USA) and the data were preprocessed using GeoChip data analysis pipeline described in http://www.ou.edu/ieg/tools/data-analysispipeline.html. Based on the GeoChip data generated from the soil samples, we have detected a total of 946 genes, 4342 taxa, 102 phyla, and 995 genera. The data presented here provide an overview of functional genes associated with kauri soil, which can serve as baseline for other kauri soil microbiome analysis at forest-scale studies. The raw data has been uploaded to Mendeley Data https://doi.org/10.17632/T22NNN385K.1.

Keywords: Agathis australis; Geochip 5; Kauri dieback; Soil microbiome.