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. 2019 Nov 19;14(11):e0220584. doi: 10.1371/journal.pone.0220584

Table 2. Homologous regions in Acinetobacter spp.

Acinetobacter non-bereziniae strains
HPC229 plasmids Strain, plasmid or chromosome (chr) Position in plasmid (bp) Length (bp) % identity Accession number Region Functional
regionsa
pAbe229-114 A. venetianus VE-C3, pAV3 111,696–1,554 3,868 99 NZ_ALIG01000010.1 1 R and S
A. lwoffii ZS207, pmZS 7,297–12,565 5,268 95 NZ_CP019144.1 2 A
A. baumannii LAC-4, chr 14,413–20,503 6,091 95 NZ_CP007712.1 3 A
A. venetianus VE-C3, pAV3 20,504–36,960 16,457 99 NZ_ALIG01000010.1 4 S and A
Acinetobacter sp. WCHA45, chr 37,327–48,798 11,472 99 NZ_CP028561.1 5 A
A. lwoffii ED9-5a, pALWED3.1 51,114–58,084 6,971 99 KX528687.1 6 S and A
58,075–59,688 1,614 98
A. venetianus VE-C3, pAV3 61,877–71,694 9,818 95 NZ_ALIG01000010.1 7 A
A. venetianus VE-C3, pAV3 72,546–78,258 5,713 92 8 A
A. pittii AP_882, pOXA58-AP_882 81,384–82,478 1,097 98 CP014479.1 9 S
A. johnsonii XBB1, pXBB1-9 85,054–96,889 11,836 99 NZ_CP010351.1 10 A
A. lwoffii ED23-35, pALWED1.1 102,998–106,433 3,436 99 KX426227.1 11 A
A. venetianus VE-C3, pAV3 106,430–108,753 1,140 99 NZ_ALIG01000010.1 12 S
pAbe229-15 A. baumannii, pMMD 13,048–2,229 4,545 98 GQ904226.1 1 R and T
A. baumannii ABNIH28, pABA-2f10 2,176–6,882 4,706 99 NZ_CP026129.1 2 A
A. baumannii AR_0052, unnamed4 plasmid 7,000–9,169 2,169 92 CP027186.1 3 S and A
A. pittii WCHAP005046, pOXA58_005046 9,748–10,203 455 96 NZ_CP028573.1 4 U
A. nosocomialis 6411, chr 11,351–13,008 1,657 78 NZ_CP010368.1 5 U
pAbe229-9s A. venetianus VE-C3, pAV1 1–2,132 2,132 79 DQ278485.1 1 R
A. baumannii ABNIH28, chr 2,252–3,632 1,380 82 NZ_CP026125.1 2 A
A. venetianus VE-C3, pAV1 3,621–4,516 895 88 NC_010309.1 3 S
A. baumannii D36, pD36-4 3,712–5,541 1,829 99 NZ_CP012956.1 4 S
A. baumannii D36, pD36-4 5,533–6,799 1,266 81 5
A. baumannii, pMMD 6,830–313 2,637 94 GQ904226.1 6 T
pAbe229-4 A. schindleri ACE, p3AsACE 1–692 691 70 NZ_CP015618.1 1 U
Acinetobacter sp. ACNIH2, pACI-235c 745–1,227 482 82 NZ_CP026414.1 2 U
A. johnsonii XBB1, pXBB1-4 1,246–2,378 1,132 87 NZ_CP010355.1 3 S
A. pittii YMC2010/8/T346, chr 3,034–4,104 1,070 70 NZ_CP017938.1 4 A
pAbe229-1 Acinetobacter sp., pM131-11 330–795 465 87 NC_025117.1 1 U
A. bereziniae strains
HPC229 plasmids Strainb Position in plasmid (bp) Length (bp)c % identity Accession number Regiond Functional
regions 		Total cover (bp)
pAbe229-114 A. bereziniae NIPH3 20,504–36,960 16,456 99 APPK01000003.1 Abe4 S and A 47,779
37,431–40,931 3,500 86 APPK01000060.1 Abe5* A
51,114–53,896 2,782 97 APPK01000003.1 Abe6* A
54,413–71,707 17,593 98 APPK01000004.1 Abe6*; Abe6-7; Abe7* A
73,566–81,014 7,448 99 APPK01000004.1 Abe8; Abe8-10 A
A. bereziniae CHI-40-1 20,504–36,960 16,456 94 CDEL01000167.1 Abe4 S and A 42,386
37,431–40,929 3,498 86 CDEL01000296.1 Abe5* A
51,114–53,998 2,884 99 CDEL01000167.1 Abe6* A
53,998–58,165 4,167 98 CDEL01000167.1 Abe6* S and A
59,646–61,052 1,406 97 CDEL01000305.1 Abe6*; Abe6-7 A
61,089–63,912 2,823 99 CDEL01000063.1 Abe6-7; abe7* A
63,854–71,428 7,574 92 CDEL01000026.1 Abe7* A
72,538–74,328 1,790 90 CDEL01000300.1 Abe8* A
76,598–78,386 1,788 92 CDEL01000225.1 Abe8* A
A. bereziniae WC-743 8,638–11,719 3,081 77 AMFQ01000090.1 Abe2* A 33,324
20,504–23,881 3,377 98 AMFQ01000055.1 Abe4* S
23,875–34,350 10,475 98 AMFQ01000007.1 Abe4* S and A
37,431–40,929 3,498 86 AMFQ01000023.1 Abe5* A
52,562–61,354 8,792 97 AMFQ01000126.1 Abe6*; Abe6-7; Abe7* S and A
61,348–65,449 4,101 99 AMFQ01000094.1 Abe7* A
A. bereziniae CIP 70.12 7,847–9,642 1,795 99 APQG01000008.1 Abe2* A 30,050
36,962–50,325 13,363 99 APQG01000004.1 Abe5 A
84,864–96,322 11,458 96 APQG01000007.1 Abe10* A
102,999–106,433 3,434 99 APQG01000007.1 Abe11 A
A. bereziniae 507_ABAU 8,107–11,787 3,680 94 JVEK01000235.1 Abe2* A 26,037
23,104–36,960 13,856 97 JVEK01000235.1 Abe4* S and A
37,431–40,929 3,494 86 JVEK01000265.1 Abe5* A
51,114–56,121 5,007 99 JVEK01000235.1 Abe6* S and A
A. bereziniae KCTC23199 7,847–9,641 1,794 99 BBLJ01000102.1 Abe2* A 23,722
36,962–50,325 13,363 99 BBLJ01000069.1 Abe5 A
84,864–86,792 1,928 99 BBLJ01000081.1 Abe10* A
91,925–96,322 4,397 96 BBLJ01000078.1 Abe10* A
104,193–106,433 2,240 99 BBLJ01000078.1 Abe11 A
A. bereziniae Ag2 34,737–36,634 1,897 86 LBNA01000036.1 Abe4* A 5,430
37,431–40,964 3,533 86 LBNA01000006.1 Abe5* A
pAbe229-15 A. bereziniae WC-743 2,176–6,882 4,706 97 AMFQ01000126 Abe2 A 4,706
A. bereziniae 507_ABAU 107–1,383 1,276 81 JVEK01000173.1 Abe1* R 3,556
1,900–2204 304 74 JVEK01000173.1 Abe1* A
13,128–15,104 1,976 76 JVEK01000173.1 Abe1* T
A. bereziniae CHI-40-1 1,458–2,107 649 71 CDEL01000197.1 Abe1* A 2,571
6,904–7,384 480 87 CDEL01000201.1 Abe2-3; Abe3* A
7,361–8,047 686 82 CDEL01000088.1 Abe3* S
9,479–10,235 756 98 CDEL01000195.1 Abe3-4; Abe4 U
A. bereziniae CIP 70.12 8,157–9,170 1,013 78 APQG01000012.1 Abe3* A 1,013
A. bereziniae KCTC23199 8,157–9,171 1,013 78 BBLJ01000051.1 Abe3* A 1,013
pAbe229-9 A. bereziniae 507_ABAU 3,760–4,445 685 84 JVEK01000068.1 Abe3* S 2,652
6,902–8,869 1,967 75 JVEK01000173.1 Abe6* T
A. bereziniae CHI-40-1 1,539–2,170 631 77 CDEL01000197.1 Abe1* U 1,422
3,713–4,504 791 91 CDEL01000314.1 Abe3* S
A. bereziniae WC-743 3,760–4,445 685 84 AMFQ01000013.1 Abe3* S 685
A. bereziniae NIPH3 3,780–4,445 665 84 APPK01000024.1 Abe3* S 665
A. bereziniae CIP 70.12 1–315 315 71 APQG01000002.1 Abe1*; Abe6* U 315
A. bereziniae KCTC23199 1–315 315 71 BBLJ01000084.1 Abe1*; Abe6* U 315
pAbe229-4 A. bereziniae Ag2 31–2,383 2,352 90 LBNA01000007.1 Abe1; Abe1-2; Abe2; Abe2-3; Abe3 S 2,352
A. bereziniae CHI-40-1 248–692 444 74 CDEL01000176.1 Abe1* U 444

aAbbreviations: Replication: R; Stability: S; Adaptive: A; Transfer: T; and unknow: U.

bA. bereziniae XH901 genomic data (GenBank accession number CP018259.1) was not included in this analysis since no plasmid sequences are available for this strain in databases.

cHits with high similarity, at least 70% nucleotide identity, and a minimum alignment length of 1000 bp (for the case of pAbe229-114) or 300 bp (for pAbe229-15, pAbe229-9, pAbe229-4) are shown. These parameters were arbitrary chosen.

dA segment located between two given Abe regions is indicated by the flanking regions separated with a hyphen (e.g. Abe1-2 is the segment between Abe1 and Abe2). Abe regions with asterisks (*) imply that the query coverage is partial.