Methanobrevibacter millerae ZA-10T - Revision history

Sharik at 18:44, 28 October 2026

2026-10-28T18:44:16Z

← Older revision		Revision as of 18:44, 28 October 2026
Line 105:		Line 105:

	== Culturing Conditions ==		== Culturing Conditions ==
	''M. millerae ZA-10T'' grows well in both RMO2-medium and MSM (''Methanobrevibacter smithii'' medium) topped with H<sub>2</sub>/CO<sub>2</sub> (80:20, v/v). Growth of ''M. millerae ZA-10T'' requires rumen fluid but does not need volatile fatty acids (VFAs), or sodium sulfide. The plating efficiency of the strain on MSM-agar plates is > 90% and colonies are visible in 5-7 days when incubated at 37°C in Wolfe ~~incubators~~ filled with a gas mixture of H<sub>2</sub>/CO<sub>2</sub> (80:20) supplemented with 1000ppm H<sub>2</sub>S .		''M. millerae ZA-10T'' is a strict anaerobe and grows well in both RMO2-medium and MSM (''Methanobrevibacter smithii'' medium) topped with H<sub>2</sub>/CO<sub>2</sub> (80:20, v/v). Growth of ''M. millerae ZA-10T'' requires rumen fluid but does not need volatile fatty acids (VFAs), or sodium sulfide. The plating efficiency of the strain on MSM-agar plates is > 90% and colonies are visible in 5-7 days when incubated at 37°C in Wolfe incubator filled with a gas mixture of H<sub>2</sub>/CO<sub>2</sub> (80:20) supplemented with 1000ppm H<sub>2</sub>S .

	== Antibiotic MIC Tests ==		== Antibiotic MIC Tests ==

Sharik: /* Antibiotic MIC Tests */

2026-10-28T18:36:12Z

Antibiotic MIC Tests

← Older revision		Revision as of 18:36, 28 October 2026
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	== Genome ==		== Genome ==
			Single contig of 2,823,065 bp.

	== DefenseFinder Results ==		== DefenseFinder Results ==

	== Methylome ==		== Methylome ==
	~~No methylation~~ motifs ~~were detected in~~ ''~~Streptococcus bovis~~'' ~~JB1~~.		{\| class="wikitable"
			\| valign="top" \|'''#6mA modified motifs'''
			\| valign="top" \|
			\| valign="top" \|
			\| valign="top" \|
			\|-
			\| valign="top" \|'''#motif'''
			\| valign="top" \|methylCounts
			\| valign="top" \|totalCounts
			\| valign="top" \|%motifsMethyl
			\|-
			\| valign="top" \|'''CA(6mA)NNNNNNNTTG'''
			\| valign="top" \|1905
			\| valign="top" \|1944
			\| valign="top" \|97.99
			\|-
			\| valign="top" \|'''CRT(6mA)NNNNNNCCT'''
			\| valign="top" \|428
			\| valign="top" \|460
			\| valign="top" \|93.04
			\|-
			\| valign="top" \|'''(6mA)GGNNNNNNTAYG'''
			\| valign="top" \|432
			\| valign="top" \|460
			\| valign="top" \|93.91
			\|-
			\| valign="top" \|'''G(6mA)TC'''
			\| valign="top" \|4913
			\| valign="top" \|6856
			\| valign="top" \|71.66
			\|-
			\| valign="top" \|'''GCT(6mA)NNNNNNRTTA'''
			\| valign="top" \|103
			\| valign="top" \|106
			\| valign="top" \|97.17
			\|-
			\| valign="top" \|'''TA(6mA)YNNNNNNTAGC'''
			\| valign="top" \|104
			\| valign="top" \|106
			\| valign="top" \|98.11
			\|-
			\| valign="top" \|
			\| valign="top" \|
			\| valign="top" \|
			\| valign="top" \|
			\|-
			\| valign="top" \|
			\| valign="top" \|
			\| valign="top" \|
			\| valign="top" \|
			\|-
			\| valign="top" \|'''#4mC modified motifs'''
			\| valign="top" \|
			\| valign="top" \|
			\| valign="top" \|
			\|-
			\| valign="top" \|'''#motif'''
			\| valign="top" \|methylCounts
			\| valign="top" \|totalCounts
			\| valign="top" \|%motifsMethyl
			\|-
			\| valign="top" \|'''TC(4mC)AT'''
			\| valign="top" \|3383
			\| valign="top" \|8313
			\| valign="top" \|40.70
			\|}

	== Methylating E. coli Strains ==		== Methylating E. coli Strains ==
	No ''E. coli'' methylation ~~strain has been constructed for~~ ''S. ~~bovis~~'' ~~JB1 strain~~		Two ''E. coli'' methylation strains, AG22054 (''dam<sup>-</sup>'') and AG22055 (''dam<sup>+</sup>''), expressing ''M. millerae ZA-10T'' methylases have been constructed by Adam Guss's group at the Oak Ridge National laboratory.

	== Culturing Conditions ==		== Culturing Conditions ==
			''M. millerae ZA-10T'' grows well in both RMO2-medium and MSM (''Methanobrevibacter smithii'' medium) topped with H<sub>2</sub>/CO<sub>2</sub> (80:20, v/v). Growth of ''M. millerae ZA-10T'' requires rumen fluid but does not need volatile fatty acids (VFAs), or sodium sulfide. The plating efficiency of the strain on MSM-agar plates is > 90% and colonies are visible in 5-7 days when incubated at 37°C in Wolfe incubators filled with a gas mixture of H<sub>2</sub>/CO<sub>2</sub> (80:20) supplemented with 1000ppm H<sub>2</sub>S .

	== Antibiotic MIC Tests ==		== Antibiotic MIC Tests ==
Line 45:		Line 112:
	!concentration (ug/mL)		!concentration (ug/mL)
	\|-		\|-
	\|~~Ampicillin~~		\|Puromycin
	\|5		\|
	\|-		\|-
	\|~~Kanamycin~~		\|Nourseothricin
	\|~~0.38~~		\|
	\|-		\|-
	\|~~Chloramphenicol~~		\|Neomycin
	\|25		\|
	\|-		\|-
	\|~~Tetracycline~~		\|8-ADP
	\|1		\|
	\|-		\|-
	\|~~Gentamicin~~		\|5-Fluorouracil
	\|~~insensitive~~		\|
	\|-		\|-
	\|~~Streptomycin~~		\|2-BES
	\|96		\|
	\|-		\|-
	\|~~Erythromycin~~		\|5-FOA
	\|~~0.23~~		\|
	\|}		\|}

Sharik: matadata

2026-10-28T17:16:43Z

matadata

New page

== Introduction ==

== Global Methane Hub Metadata ==
{| class="wikitable"
|+
|Origin:
|AgResearch, New Zealand
|-
|Sequenced by:
|Sharik Khan, University of Illinois at Urbana-Champaign
|-
|Assembled by:
|Glen Cronan, University of Illinois at Urbana-Champaign
|-
|Methylome called by:
|William G. Alexander, Oak Ridge National Laboratory
|-
|Methyltransferases cloned by:
|Adam Guss, Oak Ridge National Laboratory
|-
|MIC and Culturing Conditions by:
|Sharik Khan, University of Illinois at Urbana-Champaign
|-
|Transformation by:
|Sharik Khan, University of Illinois at Urbana-Champaign
Komal Aggrawal, University of Illinois at Urbana-Champaign
|}

== Genome ==

== DefenseFinder Results ==

== Methylome ==
No methylation motifs were detected in ''Streptococcus bovis'' JB1.

== Methylating E. coli Strains ==
No ''E. coli'' methylation strain has been constructed for ''S. bovis'' JB1 strain

== Culturing Conditions ==

== Antibiotic MIC Tests ==
{| class="wikitable"
!antibiotic
!concentration (ug/mL)
|-
|Ampicillin
|5
|-
|Kanamycin
|0.38
|-
|Chloramphenicol
|25
|-
|Tetracycline
|1
|-
|Gentamicin
|insensitive
|-
|Streptomycin
|96
|-
|Erythromycin
|0.23
|}

== Protocols ==

* [[Removal of extracellular material via chelation washing]]

== Transformation Results ==

== External Links ==