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Air samples were cultivated using selective media for G+ and G–, and further confirmed by Gram stain method.
For culture-confirmed method, water samples were cultivated through a series of selective media, and candidate colonies were confirmed by PCR.
The right palm of each participant was pressed on MRS Agar (288210, Difco, USA), which was made in advance to inoculate the culture medium with initial microorganisms, and the inoculated initial samples were cultivated for 48 h in 37 °C incubators using anaerobic gas packs (Gas Pak, BBL, USA).
Samples were cultivated in light medium.
All samples were cultivated for bacteria and mycoplasma.
The first 15 PCR-positive urine samples were cultivated, and isolates were identified as described by Reinhard et. al. (2 ).
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The Bacterial Proteogenomics Pipeline was tested on two datasets, one publicly available containing data from Bradyrhizobium Japonicum (an endosymbiont of legumes) samples grown in cowpea nodules ([ 17], PRIDE accessions 10099-10101) and one containing Synechocystis sp. PCC 6803 (hereafter: Synechocystis) samples, which were cultivated under different environmental conditions.
Arum palaestinum Boiss roots and leaves were collected from wild samples or were cultivated on site.
Trees used for sample collection were cultivated using standard horticultural practices and methods for disease and insect control.
For sample preparation, cells were cultivated in 250-ml shaker flasks (Corning Inc., Corning, New York, USA) with a culture volume of 70 ml and a seeding cell density of 3×10 cells/ml.
SR additionally provided the samples for the Synechocystis, which were cultivated, processed and measured on the mass spectrometers by NP.
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