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Table 4 SRC_c impact on Radiolaria-Dinophyta holobiont model (M3)

From: A de novo approach to disentangle partner identity and function in holobiont systems

 

no SRC

SRC

# reads used in assembly

48,733,956

48,660,697

# assembled contigs

167,023

168,899

# predicted cds

75,450

74,017

# annotated cds

47,260

45,768

N50 (bp)

 total

818

702

host

 

277

symbiont

 

324

shared

 

298

unassigned

 

714

remapping rates (%)

 total

85.6

90.5

host

 

65.2

symbiont

 

76.2

shared

 

81.3

unassigned

 

89.7

# chimera

 total

777

418

host

 

4

symbiont

 

47

shared

 

0

unassigned

 

367

Calculation time (min)

 total

330

2,783

SRC

 

2,460

assembly

330

323

  1. SRC strategy’s impact on assembled contigs quality and calculation times of the Radiolaria-Dinophyta holobiont model (M3) compared to a direct meta-transcriptome assembly strategy (i.e., the noSRC strategy). In gray are displayed the details for the SRC strategy holobiont categories (host, symbiont, shared, and unassigned). The “total” values for N50 and remapping rates of the SRC strategy were re-calculated on pooled contigs from host, symbiont, shared, and unassigned subsets