• Submit to Diversity Login Register
• MDPI
• Journals A-Z
• For Authors
• For Editors
• About
• Open Access Policy

• Abstract
• Full-Text PDF [1208 KB]
• Full-Text XML
• Article Versions Notes
• Supplement File 1
• Supplement File 2
• Supplement File 3
• Supplement File 4
• Supplement File 5

• Article Statistics
• Google Scholar
• Order Reprints

• Cite this article
• Export to BibTeX
• Export to EndNote

• [+] on DOAJ
• Orgiazzi, A
• Bianciotto, V
• Bonfante, P
• Daghino, S
• Ghignone, S
• Lazzari, A
• Lumini, E
• Mello, A
• Napoli, C
• Perotto, S
• Vizzini, A
• Bagella, S
• Murat, C
• Girlanda, M
• [+] on Google Scholar
• Orgiazzi, A
• Bianciotto, V
• Bonfante, P
• Daghino, S
• Ghignone, S
• Lazzari, A
• Lumini, E
• Mello, A
• Napoli, C
• Perotto, S
• Vizzini, A
• Bagella, S
• Murat, C
• Girlanda, M
• [+] on PubMed
• Orgiazzi, A
• Bianciotto, V
• Bonfante, P
• Daghino, S
• Ghignone, S
• Lazzari, A
• Lumini, E
• Mello, A
• Napoli, C
• Perotto, S
• Vizzini, A
• Bagella, S
• Murat, C
• Girlanda, M

•  CiteULike
•  Facebook
•  Mendeley
•  Twitter

This article is

• freely available
• re-usable

Diversity 2013, 5(1), 73-98; doi:10.3390/d5010073

Article

454 Pyrosequencing Analysis of Fungal Assemblages from Geographically Distant, Disparate Soils Reveals Spatial Patterning and a Core Mycobiome

Alberto Orgiazzi ^1,2 , Valeria Bianciotto ² , Paola Bonfante ^1,2 , Stefania Daghino ¹ , Stefano Ghignone ² , Alexandra Lazzari ¹ , Erica Lumini ² , Antonietta Mello ² , Chiara Napoli ¹ , Silvia Perotto ¹ , Alfredo Vizzini ¹ , Simonetta Bagella ³ , Claude Murat ⁴  and Mariangela Girlanda ^1,*

¹ Department of Life Science and Systems Biology, University of Turin, Torino 10125, Italy ² Plant Protection Institute (IPP)-Turin UOS, National Research Council (CNR), Torino 10125, Italy ³ Department of Scienze della Natura e del Territorio, University of Sassari, Sassari 07100, Italy ⁴ INRA, UMR 1136, INRA-Nancy Université, Interactions Arbres/Microorganismes, Champenoux 54280, France

* Author to whom correspondence should be addressed.

Received: 20 January 2013; in revised form: 5 February 2013 / Accepted: 6 February 2013 / Published: 21 February 2013

(This article belongs to the Special Issue Soil Quality and Ecosystem)

Download PDF Full-Text [1208 KB, Updated Version, uploaded 22 February 2013 15:50 CET]

The original version is still available [1208 KB, uploaded 21 February 2013 08:54 CET]

Abstract: Identifying a soil core microbiome is crucial to appreciate the established microbial consortium, which is not usually subjected to change and, hence, possibly resistant/resilient to disturbances and a varying soil context. Fungi are a major part of soil biodiversity, yet the mechanisms driving their large-scale ecological ranges and distribution are poorly understood. The degree of fungal community overlap among 16 soil samples from distinct ecosystems and distant geographic localities (truffle grounds, a Mediterranean agro-silvo-pastoral system, serpentine substrates and a contaminated industrial area) was assessed by examining the distribution of fungal ITS1 and ITS2 sequences in a dataset of 454 libraries. ITS1 and ITS2 sequences were assigned to 1,660 and 1,393 Operational Taxonomic Units (OTUs; as defined by 97% sequence similarity), respectively. Fungal beta-diversity was found to be spatially autocorrelated. At the level of individual OTUs, eight ITS1 and seven ITS2 OTUs were found in all soil sample groups. These ubiquitous taxa comprised generalist fungi with oligotrophic and chitinolytic abilities, suggesting that a stable core of fungi across the complex soil fungal assemblages is either endowed with the capacity of sustained development in the nutrient-poor soil conditions or with the ability to exploit organic resources (such as chitin) universally distributed in soils.

Keywords: fungal diversity; fungal communities; metabarcoding; microbiome; biogeography

Supplementary Files

• Supplementary File 1:

  Supplementary Material 1 (DOCX, 17 KB)

• Supplementary File 2:

  Supplementary Material 2 (DOCX, 194 KB)

• Supplementary File 3:

  Supplementary Material 3 (DOC, 151 KB)

• Supplementary File 4:

  Supplementary Material 4 (PPT, 131 KB)

• Supplementary File 5:

  Supplementary Material 5 (XLS, 49 KB)

  Examples of origins of GenBank top BLAST hits for representative sequences of the "core" OTUs.

Article Statistics

Cite This Article