perl taxonomy2tree.pl \
-s "Agrobacterium tumefaciens str. C58"      \
-s "Methanocaldococcus jannaschii"       \
-s "Methanosarcina mazei"       \
-s "Methanosarcina acetivorans"       \
-s "Archaeoglobus fulgidus"       \
-s "Pyrococcus furiosus"       \
-s "Sulfolobus solfataricus"       \
-s "Thermoplasma acidophilum"       \
-s "Methanopyrus kandleri"       \
-s "Pyrobaculum aerophilum"       \
-s "Pyrococcus abyssi"       \
-s "Methanococcus maripaludis"       \
-s "Thermoplasma volcanium"       \
-s "Pyrococcus horikoshii"       \
-s "Aeropyrum pernix"       \
-s "Halobacterium sp. NRC-1"      \
-s "Sulfolobus tokodaii"       \
-s "Nanoarchaeum equitans"       \
-s "Methanothermobacter thermautotrophicus str. Delta H"    \
-s "Pirellula sp."       \
-s "Borrelia burgdorferi"       \
-s "Treponema denticola"       \
-s "Treponema pallidum"       \
-s "Leptospira interrogans"       \
-s "Campylobacter jejuni"       \
-s "Helicobacter pylori"       \
-s "Pseudomonas aeruginosa"       \
-s "Ralstonia solanacearum"       \
-s "Pseudomonas syringae pv. tomato"     \
-s "Xanthomonas campestris pv. campestris"     \
-s "Bradyrhizobium japonicum"       \
-s "Mesorhizobium loti"       \
-s "Sinorhizobium meliloti"       \
-s "Neisseria meningitidis serogroup B"     \
-s "Bordetella bronchiseptica"       \
-s "Bordetella parapertussis"       \
-s "Bordetella pertussis"       \
-s "Chromobacterium violaceum"       \
-s "Escherichia coli"       \
-s "Salmonella typhi"       \
-s "Salmonella typhimurium"       \
-s "Shigella flexneri"       \
-s "Yersinia pestis"       \
-s "Vibrio cholerae"       \
-s "Vibrio parahaemolyticus"       \
-s "Vibrio vulnificus"       \
-s "Haemophilus influenzae"       \
-s "Haemophilus ducreyi"       \
-s "Pasteurella multocida"       \
-s "Coxiella burnetii"       \
-s "Rickettsia conorii"       \
-s "Rickettsia prowazekii"       \
-s "Chlamydia trachomatis"       \
-s "Bacteroides thetaiotaomicron"       \
-s "Porphyromonas gingivalis"       \
-s "Wolinella succinogenes"       \
-s "Desulfovibrio vulgaris subsp. vulgaris str. Hildenborough"   \
-s "Nitrosomonas europaea"       \
-s "Bdellovibrio bacteriovorus"       \
-s "Rhodopseudomonas palustris"       \
-s "Chlorobaculum tepidum"       \
-s "Synechocystis sp. PCC 6803"     \
-s "Prochlorococcus marinus"       \
-s "Staphylococcus epidermidis"       \
-s "Deinococcus radiodurans"       \
-s "Streptococcus mutans"       \
-s "Streptococcus pneumoniae"       \
-s "Streptococcus pyogenes"       \
-s "Enterococcus faecalis"       \
-s "Lactococcus lactis subsp. lactis"     \
-s "Bacillus subtilis"       \
-s "Clostridium acetobutylicum"       \
-s "Clostridium perfringens"       \
-s "Clostridium tetani"       \
-s "Lactobacillus plantarum"       \
-s "Listeria monocytogenes"       \
-s "Listeria innocua"       \
-s "Corynebacterium diphtheriae"       \
-s "Corynebacterium glutamicum"       \
-s "Mycobacterium bovis"       \
-s "Mycobacterium leprae"       \
-s "Mycobacterium avium subsp. paratuberculosis"     \
-s "Streptomyces coelicolor"       \
-s "Mycoplasma gallisepticum"       \
-s "Mycoplasma genitalium"       \
-s "Mycoplasma pneumoniae"       \
-s "Mycoplasma pulmonis"       \
-s "Thermotoga maritima"       \
-s "Xylella fastidiosa"       \
-s "Mycoplasma penetrans"       \
-s "Brucella melitensis"       \
-s "Brucella melitensis biovar Suis"     \
-s "Helicobacter hepaticus"       \
-s "Synechococcus elongatus"       \
-s "Gloeobacter violaceus"       \
-s "Streptomyces avermitilis"       \
-s "Lactobacillus johnsonii"       \
-s "Geobacter sulfurreducens"       \
-s "Wigglesworthia glossinidia endosymbiont of Glossina brevipalpis"   \
-s "Mycoplasma mycoides subsp. mycoides SC"    \
-s "Leptospira interrogans serovar Copenhageni"     \
-s "Fibrobacter succinogenes subsp. succinogenes S85"    \
-s "Prochlorococcus marinus subsp. pastoris str. CCMP1986"   \
-s "Aquifex aeolicus"       \
-s "Neisseria meningitidis serogroup A"     \
-s "Wolbachia sp. wMel"      \
-s "Shewanella oneidensis"       \
-s "Photobacterium profundum"       \
-s "Prochlorococcus marinus str. MIT 9313"    \
-s "Fusobacterium nucleatum subsp. nucleatum"     \
-s "Mycobacterium tuberculosis CDC1551"      \
-s "Mycobacterium tuberculosis H37Rv"      \
-s "Escherichia coli O157:H7"      \
-s "Chlamydophila caviae"       \
-s "Chlamydia muridarum"       \
-s "Synechococcus sp. WH 8102"     \
-s "Helicobacter pylori J99"      \
-s "Bacillus halodurans"       \
-s "Xanthomonas axonopodis pv. citri"     \
-s "Buchnera aphidicola (Schizaphis graminum)"     \
-s "Onion yellows phytoplasma"      \
-s "Nostoc sp. PCC 7120"     \
-s "Chlamydophila pneumoniae AR39"      \
-s "Chlamydophila pneumoniae CWL029"      \
-s "Buchnera aphidicola (Acyrthosiphon pisum)"     \
-s "Thermoanaerobacter tengcongensis"       \
-s "Ureaplasma parvum"       \
-s "Buchnera aphidicola (Baizongia pistaciae)"     \
-s "Chlamydophila pneumoniae J138"      \
-s "Photorhabdus luminescens subsp. laumondii"     \
-s "Corynebacterium efficiens"       \
-s "Escherichia coli O157:H7 EDL933"     \
-s "Caulobacter vibrioides"       \
-s "Staphylococcus aureus subsp. aureus Mu50"    \
-s "Staphylococcus aureus subsp. aureus N315"    \
-s "Pseudomonas putida KT2440"      \
-s "Streptococcus pneumoniae R6"      \
-s "Chlamydophila pneumoniae TW-183"      \
-s "Oceanobacillus iheyensis"       \
-s "Xylella fastidiosa Temecula1"      \
-s "Streptococcus pyogenes MGAS8232"      \
-s "Yersinia pestis KIM"      \
-s "Streptococcus pyogenes SSI-1"      \
-s "Vibrio vulnificus YJ016"      \
-s "Staphylococcus aureus subsp. aureus MW2"    \
-s "Corynebacterium glutamicum ATCC 13032"     \
-s "Bacillus anthracis str. Ames"     \
-s "Shigella flexneri 2a str. 2457T"    \
-s "Streptococcus pyogenes MGAS315"      \
-s "Tropheryma whipplei str. Twist"     \
-s "Candidatus Blochmannia floridanus"      \
-s "Salmonella enterica subsp. enterica serovar Typhi Ty2"  \
-s "Gemmata obscuriglobus UQM 2246"     \
-s "Streptococcus agalactiae serogroup V"     \
-s "Streptococcus agalactiae serogroup III"     \
-s "Bifidobacterium longum"       \
-s "Escherichia coli O6"      \
-s "Tropheryma whipplei TW08/27"      \
-s "Bacillus cereus ATCC 10987"     \
-s "Bacillus cereus ATCC 14579"     \
-s "Yersinia pestis biovar Medievalis str. 91001"   \
-s "Solibacter usitatus Ellin6076"      \
-s "Acidobacterium capsulatum ATCC 51196"     \
-s "Dehalococcoides ethenogenes 195"      \
-s "Thermus thermophilus HB27"      \
-s "Listeria monocytogenes str. 4b F2365"    \
-s "Mycoplasma mobile 163K"      \
-s "Arabidopsis thaliana"       \
-s "Oryza sativa"       \
-s "Schizosaccharomyces pombe"       \
-s "Saccharomyces cerevisiae"       \
-s "Leishmania major"       \
-s "Caenorhabditis briggsae"       \
-s "Caenorhabditis elegans"       \
-s "Drosophila melanogaster"       \
-s "Danio rerio"       \
-s "Gallus gallus"       \
-s "Pan troglodytes"      \
-s "Homo sapiens"      \
-s "Mus musculus"       \
-s "Rattus norvegicus"       \
-s "Takifugu rubripes"       \
-s "Eremothecium gossypii"       \
-s "Plasmodium falciparum 3D7"      \
-s "Dictyostelium discoideum"       \
-s "Cyanidioschyzon merolae"       \
-s "Anopheles gambiae str. PEST"     \
-s "Giardia lamblia ATCC 50803"     \
-s "Cryptosporidium hominis"       \
-s "Thalassiosira pseudonana CCMP1335"