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M__ ♦
M__ ♦
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I have a few questions about these three methods.

  1. We commonly use 16s rRNA to identify species and construct a phylogenetic tree. If there's a new isolate from a new and undiscovered ecosystem, should we confirm this new isolate identity with ANI taxonomy/ genome to genome distance criteriacalculation (GGDC)?
  • If that isolate has a high similarity with a certain species in the 16s rRNA analysis result, should we proceed to analyze further with ANI/GGDC? Or just let it be because we have a robust 16s rRNA analysis? How can we be sure with our 16s rRNA BLAST result?
  1. When should we use 16s rRNA rather than ANI/GGDC and vice versa?
  2. Is it always necessary to confirm 16s rRNA analysis with ANI/GGDC? (Assuming there's a lot of closely-related genome data available in databases)
  3. Should we confirm the ANI result with GGDC and vice versa?

I have a few questions about these three methods.

  1. We commonly use 16s rRNA to identify species and construct a phylogenetic tree. If there's a new isolate from a new and undiscovered ecosystem, should we confirm this new isolate identity with ANI taxonomy/ genome to genome distance criteria (GGDC)?
  • If that isolate has a high similarity with a certain species in the 16s rRNA analysis result, should we proceed to analyze further with ANI/GGDC? Or just let it be because we have a robust 16s rRNA analysis? How can we be sure with our 16s rRNA BLAST result?
  1. When should we use 16s rRNA rather than ANI/GGDC and vice versa?
  2. Is it always necessary to confirm 16s rRNA analysis with ANI/GGDC? (Assuming there's a lot of closely-related genome data available in databases)
  3. Should we confirm the ANI result with GGDC and vice versa?

I have a few questions about these three methods.

  1. We commonly use 16s rRNA to identify species and construct a phylogenetic tree. If there's a new isolate from a new and undiscovered ecosystem, should we confirm this new isolate identity with ANI taxonomy/ genome to genome distance calculation (GGDC)?
  • If that isolate has a high similarity with a certain species in the 16s rRNA analysis result, should we proceed to analyze further with ANI/GGDC? Or just let it be because we have a robust 16s rRNA analysis? How can we be sure with our 16s rRNA BLAST result?
  1. When should we use 16s rRNA rather than ANI/GGDC and vice versa?
  2. Is it always necessary to confirm 16s rRNA analysis with ANI/GGDC? (Assuming there's a lot of closely-related genome data available in databases)
  3. Should we confirm the ANI result with GGDC and vice versa?
I added the GGDC acronym and a tag 44 characters in body
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M__ ♦
M__ ♦
  • 13k
  • 5
  • 29
  • 46

I have a few questions about these three methods.

  1. We commonly use 16s rRNA to identify species and construct a phylogenetic tree. If there's a new isolate from a new and undiscovered ecosystem, should we confirm this new isolate identity with ANI taxonomy/GGDC? If that isolate has a high similarity with a certain species in the 16s rRNA analysis result, should we proceed to analyze further with ANI/GGDC? Or just let it be because we have a robust 16s rRNA analysis? How can we be sure with our 16s rRNA BLAST result?
  2. When should we use 16s rRNA rather than ANI/GGDC and vice versa?
  3. Is it always necessary genome to confirm 16s rRNA analysis with ANI/GGDC?genome distance criteria (Assuming there's a lot of closely-related genome data available in databasesGGDC)
  4. Should we confirm the ANI result with GGDC and vice versa?
  • If that isolate has a high similarity with a certain species in the 16s rRNA analysis result, should we proceed to analyze further with ANI/GGDC? Or just let it be because we have a robust 16s rRNA analysis? How can we be sure with our 16s rRNA BLAST result?
  1. When should we use 16s rRNA rather than ANI/GGDC and vice versa?
  2. Is it always necessary to confirm 16s rRNA analysis with ANI/GGDC? (Assuming there's a lot of closely-related genome data available in databases)
  3. Should we confirm the ANI result with GGDC and vice versa?

I have a few questions about these three methods.

  1. We commonly use 16s rRNA to identify species and construct a phylogenetic tree. If there's a new isolate from a new and undiscovered ecosystem, should we confirm this new isolate identity with ANI taxonomy/GGDC? If that isolate has a high similarity with a certain species in the 16s rRNA analysis result, should we proceed to analyze further with ANI/GGDC? Or just let it be because we have a robust 16s rRNA analysis? How can we be sure with our 16s rRNA BLAST result?
  2. When should we use 16s rRNA rather than ANI/GGDC and vice versa?
  3. Is it always necessary to confirm 16s rRNA analysis with ANI/GGDC? (Assuming there's a lot of closely-related genome data available in databases)
  4. Should we confirm the ANI result with GGDC and vice versa?

I have a few questions about these three methods.

  1. We commonly use 16s rRNA to identify species and construct a phylogenetic tree. If there's a new isolate from a new and undiscovered ecosystem, should we confirm this new isolate identity with ANI taxonomy/ genome to genome distance criteria (GGDC)?
  • If that isolate has a high similarity with a certain species in the 16s rRNA analysis result, should we proceed to analyze further with ANI/GGDC? Or just let it be because we have a robust 16s rRNA analysis? How can we be sure with our 16s rRNA BLAST result?
  1. When should we use 16s rRNA rather than ANI/GGDC and vice versa?
  2. Is it always necessary to confirm 16s rRNA analysis with ANI/GGDC? (Assuming there's a lot of closely-related genome data available in databases)
  3. Should we confirm the ANI result with GGDC and vice versa?
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raysteven
raysteven
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Questions about microbial 16s rRNA phylogenetic, ANI Taxonomy, and GGDC

I have a few questions about these three methods.

  1. We commonly use 16s rRNA to identify species and construct a phylogenetic tree. If there's a new isolate from a new and undiscovered ecosystem, should we confirm this new isolate identity with ANI taxonomy/GGDC? If that isolate has a high similarity with a certain species in the 16s rRNA analysis result, should we proceed to analyze further with ANI/GGDC? Or just let it be because we have a robust 16s rRNA analysis? How can we be sure with our 16s rRNA BLAST result?
  2. When should we use 16s rRNA rather than ANI/GGDC and vice versa?
  3. Is it always necessary to confirm 16s rRNA analysis with ANI/GGDC? (Assuming there's a lot of closely-related genome data available in databases)
  4. Should we confirm the ANI result with GGDC and vice versa?