Table 2.

Mosquito-associated viruses identified in honey-baited Flinders’ Technology Associates (FTA) cards by next-generation sequencing (NGS) analysis. Taxonomic assignations with assembly lengths higher than 400 nt are shown. Abundance and contig length are expressed in nucleotides (nt). Viral identities are expressed in nucleotides and amino acids (aa).

	Closest Hit	Gene/Product	Abundance	aa Identity (%)	Max. Contig Length	% Coverage	nt Identity (%)	Accession No.
Rural	Alphamesonivirus 1	Spike protein, hypothetical protein	3606196	53–100	1328	100	99.18	MF176279.1
	Bunyaviridae environmental sample	RNA-dependent RNA polymerase	335292	49–99	4354	99	99.02	KP642114.1
	Culex bunya-like virus	Hypothetical protein	289007	47–100	920	98	98.45	MH188002.1
	Culex iflavi-like virus 4	Polyprotein	1009175	71–100	1706	99	95.77	NC_040574.1
	Culex picorna-like virus 1	Polyprotein	806998	64–100	1238	100	96.37	MH703059.1
	Culex-associated Luteo-like virus	Hypothetical protein, RNA-dependent RNA polymerase	3285	67–100	566	99	95.04	MK440647.1
	Dezidougou virus	Hypothetical protein 1	9366	87–100	638	100	94.34	KY968698.1
	Hubei picorna-like virus 61	Hypothetical protein	53578	84–100	916	99	95.63	KX883915.1
	Wenzhou soberno-like virus 4	Hypothetical proteins 1 and 2	668852	94–98	2284	100	96.67	KX882831.1
	Wuhan mosquito virus 5	PB1	5460	50	580	13	75.95	KX898491.1
Peri-urban	Aedes pseudoscutellaris reovirus	VP1	5244	69–100	667	99	78.08	DQ087276.1
	Alphamesonivirus 1	ORF1a, pp1a polyprotein	22590	60–100	932	100	98.18	MH520106.1
	Culex Hubei-like virus	Hypothetical protein	5142	85–100	510	91	90.34	MH188025.1
	Culex iflavi-like virus 4	Polyprotein	168154	97–100	2170	100	96.04	NC_040574.1
	Culex luteo-like virus	RNA-dependent RNA polymerase	16686	42–67	1279	65	67.49	MF176386.1
	Culex picorna-like virus 1	Polyprotein	102979	77–100	1290	100	98.29	MH703059.1
	Culex pipiens associated Tunisia virus	Replicase	11319	96–100	1446	98	89.11	NC_040723.1
	Culicine-associated Z virus	VP1, RNA-dependent RNA polymerase	14584	77–97	765	96	83.33	KF298283.1
	Daeseongdong virus 1	ORF1, putative RNA-dependent RNA polymerase	614537	75–95	5831	95	82.27	KU095841.1
	Dezidougou virus	Hypothetical protein 1	1424472	85–100	1882	100	95.42	KY968698.1
	Karumba virus	Similar NS5 protein	96687	49	3160	28	76.31	JF707857.1
	Hubei picorna-like virus 61	Hypothetical protein	5815018	70–100	1252	100	96.01	KX883915.1
	Negevirus nona 1	Hypothetical protein	190830	49–95	2765	99	87.11	AB972669.1
	Wuhan mosquito virus 6	Nucleoprotein	9480	72–100	468	100	97.01	MF176381.1
	Wuhan mosquito virus 7	PB1	43351	53–100	1846	100	92.15	KM817626.1

Bold type corresponds to the selected viruses for primers design.