Update goa.yaml to remove and add bacterial and viral species

[pgaudet]

We noticed that the list requested in geneontology/neo#116
included organisms without a reference proteome, so we were attempting to load >1.5M entries.

New list: https://docs.google.com/spreadsheets/d/1dQ0gN2HQjq2IFuXQrUdE5uRmMvZaUuylYQ1RvclrCqc/edit?gid=1998866383#gid=1998866383

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Citrobacter koseri (Citrobacter diversus)	545	UP000270272	5,617
Klebsiella pneumoniae subsp. ozaenae (subspecies)	574	UP000255382	6,726
Shigella flexneri	623	UP000001006	4,103
Enterococcus gallinarum	1353	UP000254807	3,635
Bacillus anthracis	1392	UP000000594	5,493
Streptomyces clavuligerus	1901	UP000002357	7,290
Vaccinia virus (strain Western Reserve) (VACV) (Vaccinia virus (strain WR))	10254	UP000000344	218
Human herpesvirus 1 (strain 17) (HHV-1) (Human herpes simplex virus 1)	10299	UP000009294	73
Varicella-zoster virus (strain Dumas) (HHV-3) (Human herpesvirus 3)	10338	UP000002602	69
Human cytomegalovirus (strain AD169)	10360	UP000008992	148
Foot-and-mouth disease virus serotype O (FMDV)	12118	UP000008765	5
Hepatitis C virus genotype 1a (isolate H77) (HCV)	63746	UP000000518	2
Zika virus (ZIKV)	64320	UP000054557	2
Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd)	71421	UP000000579	1,704
Escherichia coli (strain K12)	83333	EcoCyc
Escherichia coli O157:H7	83334	UP000000558	5,057
Helicobacter pylori (strain ATCC 700392 / 26695)	85962	UP000000429	1,554
Staphylococcus aureus (strain NCTC 8325 / PS 47)	93061	UP000008816	2,889
Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)	99287	UP000001014	4,533
Streptomyces coelicolor (strain ATCC BAA-471 / A3(2) / M145)	100226	UP000001973	8,038
Neisseria meningitidis serogroup B (strain ATCC BAA-335 / MC58)	122586	UP000000425	2,001
Listeria monocytogenes serovar 1/2a (strain ATCC BAA-679 / EGD-e)	169963	UP000000817	2,844
Streptococcus pneumoniae serotype 4 (strain ATCC BAA-334 / TIGR4)	170187	UP000000585	2,109
Streptococcus pneumoniae (strain ATCC BAA-255 / R6)	171101	UP000000586	2,031
Campylobacter jejuni subsp. jejuni serotype O:2 (strain ATCC 700819 / NCTC 11168)	192222	UP000000799	1,623
Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)	208964	UP000002438	5,563
Bacillus subtilis (strain 168)	224308	UP000001570	4,260
Enterococcus faecalis (strain ATCC 700802 / V583)	226185	UP000001415	3,240
Mycoplasma genitalium (strain ATCC 33530 / DSM 19775 / NCTC 10195 / G37) (Mycoplasmoides genitalium)	243273	UP000000807	483
Halalkalibacterium halodurans (strain ATCC BAA-125 / DSM 18197 / FERM 7344 / JCM 9153 / C-125) (Bacillus halodurans)	272558	UP000001258	4,006
Mycoplasma pneumoniae (strain ATCC 29342 / M129 / Subtype 1) (Mycoplasmoides pneumoniae)	272634	UP000000808	686
Human cytomegalovirus (strain Merlin) (HHV-5) (Human herpesvirus 5)	295027	UP000000938	168
Streptococcus pyogenes serotype M1 (Strain: ATCC 700294 / SF370 / Serotype M1)	301447	UP000000750	1,690
Human immunodeficiency virus type 1 group O (isolate ANT70)	327105	UP000007689	9
HPV16	333760	UP000009251	9
Streptococcus pneumoniae serotype 2 (strain D39 / NCTC 7466)	373153	UP000001452	1,915
Mycobacterium tuberculosis (strain ATCC 25177 / H37Ra)	419947	UP000001988	3,990
Enterococcus casseliflavus EC20	565655	UP000012675	3,112
Acinetobacter baumannii (strain ATCC 19606 / DSM 30007 / JCM 6841 / CCUG 19606 / CIP 70.34 / NBRC 109757 / NCIMB 12457 / NCTC 12156 / 81)	575584	UP000005740	3,765
Variola virus (isolate Human/India/Ind3/1967)	587200	UP000002060	199
Measles virus (strain Ichinose-B95a) (MeV) (Subacute sclerose panencephalitis virus)	645098	UP000008699	8
Hepatitis B virus genotype C subtype ayr (isolate Human/Japan/Okamoto/-) (HBV-C)	928302	UP000008591	5
Klebsiella pneumoniae subsp. pneumoniae (strain HS11286)	1125630	UP000007841	5,728

Did not include E. coli 83333 because we load that one via EcoCyc.

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For this PR: removed the following taxa:

253
287
470
546
548
550
562
571
573
615
1313
1352
1390
10255
10298
10335
10359
11251
35703
36352
37734
90371
128958
286636
367830
416870
529507
941280

And added
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Organism	Taxon ID
Klebsiella pneumoniae subsp. ozaenae (subspecies)	574
Human herpesvirus 1 (strain 17) (HHV-1) (Human herpes simplex virus 1)	10299
Varicella-zoster virus (strain Dumas) (HHV-3) (Human herpesvirus 3)	10338
Human cytomegalovirus (strain AD169)	10360
Staphylococcus aureus (strain NCTC 8325 / PS 47)	93061
Human cytomegalovirus (strain Merlin) (HHV-5) (Human herpesvirus 5)	295027
Streptococcus pyogenes serotype M1 (Strain: ATCC 700294 / SF370 / Serotype M1)	301447
Enterococcus casseliflavus EC20	565655
Variola virus (isolate Human/India/Ind3/1967)	587200

[pgaudet]

@kltm PR is here:
#2448

[kltm]

@pgaudet There were some inconsistencies, if you could update the PR to iron those out: #2448 (review)