Table 1 Viruses and phages found in the RNA-seq data.

From: Different bacterial and viral pathogens trigger distinct immune responses in a globally invasive ant

Viral species

Without honey bee hives

With honey bee hives

All sites combined

Mean

Range

n

Mean

Range

n

Mean

Range

n

Linepithema humile partiti-like virus 1 (LhuPLV1) †

1.343

(0.295–2.739)

8

2.183

(1.784–3.008)

4

1.623

(0.295–3.008)

12

Linepithema humile toti-like virus 1 (LhuTLV1) †

0.782

(0.224–1.434)

8

0.988

(0.500–1.635)

4

0.851

(0.224–1.635)

12

Linepithema humile bunya-like virus 1 (LhuBLV1) †

0.978

(0.391–2.232)

8

0.333

(0.118–0.665)

4

0.763

(0.118–2.232)

12

Linepithema humile polycipivirus 2 (LhuPcV2)

0.518

(0.110–1.432)

8

1.187

(0.526–2.303)

4

0.741

(0.110–2.303)

12

Linepithema humile picorna-like virus 1 (LhuPiLV1)

0.067

(0.002–0.250)

8

1.688

(0.015–6.625)

4

0.607

(0.002–6.625)

12

Linepithema humile virus 1 (LHUV-1) †

0.037

(0.007–0.065)

8

1.153

(0.162–3.081)

4

0.409

(0.007–3.081)

12

Pseudomonas phage PS-1

2.341

(0.427–6.802)

6

1.440

(0.379–2.371)

4

1.980

(0.379–6.802)

10

Linepithema humile C-virus 1 (LhuCV1) †

2.449

(0.246–6.625)

4

2.330

(0.001–6.829)

3

2.398

(0.001–6.829)

7

Deformed wing virus (DWV) †

0.001

(0.001–0.002)

3

0.948

(0.024–3.290)

4

0.542

(0.001–3.290)

7

Kashmir bee virus (KBV) †

0.106

(0.069–0.142)

2

2.683

(0.265–4.248)

4

1.824

(0.069–4.248)

6

Linepithema humile rhabdo-like virus 1 (LhuRLV1) †

8.875

(6.577–11.196)

3

1.503

(0.986–2.020)

2

5.926

(0.986–11.196)

5

Rhopalosiphum padi virus

1.711

(1.098–2.514)

3

1.075

(1.075–1.075)

1

1.552

(1.075–2.514)

4

Shigella phage SfIV

1.091

(0.859–1.271)

3

2.709

(2.709–2.709)

1

1.496

(0.859–2.709)

4

Linepithema humile narna-like virus 1 (LhuNLV1)

—

—

0

3.018

(1.114–5.868)

3

3.018

(1.114–5.868)

3

Escherichia virus HK022

1.982

(0.787–3.176)

2

0.540

(0.540–0.540)

1

1.501

(0.540–3.176)

3

Salmonella phage SJ46

3.317

(3.317–3.317)

1

—

—

0

3.317

(3.317–3.317)

1

Thika virus

3.317

(3.317–3.317)

1

—

—

0

3.317

(3.317–3.317)

1

  1. For each virus, viral loads are expressed as the scaled sum of TMM-normalised TPM counts for all annotated transcripts present. TPM counts were also normalised by the respective Argentine ant library size. The rows are sorted firstly by the highest to lowest prevalence of the viruses in the 12 samples, and then by the average viral abundance. The average abundance estimates are only from sites where the virus occurs, i.e. values of 0 were excluded from the average virus estimates. Viruses marked with † were those confirmed via RT-PCR and Sanger sequencing.
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