Comparative Metagenomics Reveal Phylum Level Temporal and Spatial Changes in Mycobiome of Belowground Parts of Crocus sativus.
Plant-fungal associations have been explored by routine cultivation based approaches and cultivation based approaches cannot catalogue more than 5% of fungal diversity associated with any niche. In the present study, an attempt has been made to catalogue fungal diversity associated with belowground parts i.e. rhizosphere and cormosphere, of Crocus sativus (an economically important herb) during two growth stages, using cultivation independent ITS gene targeted approach, taking bulk soil as reference. The 454 pyrosequencing sequence data analysis suggests that the fungal diversity was niche and growth stage specific. Fungi diversity, in the present case, was not only different between the two organs (roots and corm) but the dominance pattern varies between the cormosphere during two growth stages. Zygomycota was dominant fungal phylum in the rhizosphere whereas Basidiomycota was dominant in cormosphere during flowering stage. However in cormosphere though Basidiomycota was dominant phylum during flowering stage but Zygomycota was dominant during dormant stage. Interestingly, in cormosphere, the phyla which was dominant at dormant stage was rare at flowering stage and vice-versa (Basidiomycota: Flowering = 93.2% Dormant = 0.05% and Zygomycota: Flowering = 0.8% Dormant = 99.7%). At genus level, Rhizopus was dominant in dormant stage but was rare in flowering stage (Rhizopus: Dormant = 99.7% Flowering = 0.55%). This dynamics is not followed by the bulk soil fungi which was dominated by Ascomycota during both stages under study. The genus Fusarium, whose species F. oxysporum causes corm rot in C. sativus, was present during both stages with slightly higher abundance in roots. Interestingly, the abundance of Rhizopus varied a great deal in two stages in cormosphere but the abundance of Fusarium was comparable in two growth stages (Bulk soil Flowering = 0.05%, Rhizosphere Flowering = 1.4%, Cormosphere Flowering = 0.06%, Bulk soil Dormant = 2.47% and cormosphere dormant = 0.05%). This is the first report on the fungal diversity associated with the root of Crocus sativus and first report on the fungi associated with corm of any plant with the temporal and spatial variation in the fungal community structure.
School of Biotechnology, University of Jammu, Jammu, India.|Next Generation Genomics Facility, C-CAMP, NCBS, Bangalore, India.
Sheetal
S
Ambardar
Next Generation Genomics Facility, C-CAMP, NCBS, Bangalore, India.
Heikham Russiachand
HR
Singh
Next Generation Genomics Facility, C-CAMP, NCBS, Bangalore, India.
Malali
M
Gowda
School of Biotechnology, University of Jammu, Jammu, India.
Jyoti
J
Vakhlu
ISME J. 2009 Jan;3(1):79-92
18830279
ISME J. 2012 Jul;6(7):1378-90
22189496
Microb Ecol. 2012 May;63(4):804-12
22080256
Antonie Van Leeuwenhoek. 2012 May;101(4):891-904
22307841
Annu Rev Phytopathol. 2011;49:291-315
19400639
Mol Ecol. 2014 Mar;23(6):1318-32
24118303
Curr Microbiol. 2011 Sep;63(3):273-80
21739250
Front Plant Sci. 2014 May 21;5:216
24904612
PLoS Comput Biol. 2012;8(10):e1002743
23133348
PLoS One. 2015 Jul 01;10(7):e0131069
26132745
ScientificWorldJournal. 2013 Dec 25;2013:606480
24459438
Microb Ecol. 2012 Apr;63(3):682-93
22038036
Front Plant Sci. 2013 May 30;4:165
23755059
FEMS Microbiol Ecol. 2012 Dec;82(3):736-45
22775574
Springerplus. 2015 Nov 02;4:661
26558164
Appl Environ Microbiol. 2003 Jul;69(7):3758-66
12839741
FEMS Microbiol Ecol. 2014 Jan;87(1):2-17
24003903
PLoS One. 2013 Oct 21;8(10):e78248
24250752
World J Microbiol Biotechnol. 2013 Dec;29(12):2271-9
23749248
PLoS One. 2013 Sep 09;8(9):e73729
24040044
Ecol Evol. 2012 Aug;2(8):1935-48
22957194
Appl Environ Microbiol. 2011 Sep;77(17):5934-44
21764952
Indian J Microbiol. 2012 Jun;52(2):145-52
23729874
Appl Environ Microbiol. 2005 Aug;71(8):4203-13
16085804
Appl Environ Microbiol. 2005 Dec;71(12):8228-35
16332807
World J Microbiol Biotechnol. 2014 Oct;30(10):2701-9
24989343
New Phytol. 2012 Oct;196(2):510-9
22934891
Appl Environ Microbiol. 2009 Dec;75(23):7537-41
19801464
Springerplus. 2013 Dec;2(1):8
23420270
Pharm Biol. 2012 Feb;50(2):129-33
21517707