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Sample names to be changed

Sample names to be changed

Nov 25, 2016

From time to time we may alter the species name recorded for a sample. While this is most often just to correct a slight error in spelling or to use a taxonomic synonym that is judged to be a better choice, we also have cases where we now believe that the original record is incorrect. Since these names are embedded in many of the file contents, it is quite a lot of work to change everything in our databases. We therefore decided to only make the changes before submission for publication. In the meantime we have created this page so that everyone knows the current status.

Samples thought to contain more than one species

 

Current Best Name

Name Used in Files

Comments

 

Current Best Name

Name Used in Files

Comments

NWQC

mixed species

Plagiochila_asplenioides

Plagiochila asplenioides and Fissidens adianthoides found in voucher

CHJJ

Frullania spp.

Lejeuneaceae_sp.

mixed: Frullania inflata (majority) and some F. Eboracensis found in voucher

RXRQ

mixed species

Phaeoceros_carolinianus

two types of photoreceptor genes, 2nd close to Anthoceros, verified in voucher

AEKF

mixed species

Penium_margaritaceum

2nd rbcL present (Deschampsia-like)

IQJU

mixed species

Anthoceros_formosae

appears to have a Festuca contaminant

BMZI

Mollugo spp.

Mollugo_pentaphylla

mixture of M. Pentaphylla and M. verticillata

UXCS

mixed species

Marattia_sp.

two rbcL sequences, one Angiopteris-like, the other to Bolbitis-like

Samples reclassified upon inspection of the sequence data

 

Current Best Name

Name Used in Files

Comments

 

Current Best Name

Name Used in Files

Comments

PZRT

Nymphaea sp.

Nelumbo_nucifera

 

AFPO

Athyrium filix-femina

Blechnum_spicant

 

BMJR

Adiantum raddianum

Adiantum_tenerum

revised from chloroplast marker sequences

ISGT

Uronema sp.

Hormidiella_sp.

 

PWKQ

Gracilaria sp.

Prionitis_divaricata

 

JQFK

Picochlorum atomus

Nannochloropsis_oculata

synonym confusion in original name

STKJ

Cosmarium ochthodes

Zygnema_sp.

two samples mixed-up in sequencing

HJVM

Zygnema sp.

Cosmarium_ochthodes

two samples mixed-up in sequencing

GCYL

Portulaca suffrutescens

Portulaca_suffruticosa

 

PGKL

 

Phellodendron_amurense

sample appears to be a Juglandaceae

Samples that may contain mislabeled data

A special case of names changes is a set of assemblies that were erroneously constructed from the wrong source data. Correct assemblies are now available, but not all derived data/files have yet been replaced. Scaffolds numbered in the 200000-2999999 range should not be used, with the corrected replacements being in the 3000000-3999999 range.

 

Species Name

Additional Description

 

Species Name

Additional Description

GDUD

Chloromonas reticulata

B

OVHR

Chlamydomonas bilatus

B

WGMD

Zygnema sp.

B

NLOM

Pediastrum duplex

B - CCAC 0012

FMRU

Zygnema sp.

2 samples combined

YOHC

Pediastrum duplex

2 samples combined

JRDV

Pediastrum duplex

3 samples combined

SRGS

Chlamydomonas bilatus

2 samples combined

ZLBP

Chloromonas reticulata

2 samples combined

Combined samples affected by reclassification of a source sample

 

Species Name

Comments

 

Species Name

Comments

RWYZ

was Blechnum spicant

Athyrium / Blechnum mix

GMRU

was Zygnema sp.

Zygnema / Cosmarium mix with brown algae detected

SRGS

was Chlamydomonas bilatus

blown algae detected

ZLBP

was Chloromonas reticulara

brown algae detected

Samples renamed for unidentified reasons (Please contact Eric Carpenter if you know what happened)

 

Current Best Name

Name Used in Files

Comments

 

Current Best Name

Name Used in Files

Comments

LNER

Casuarina equisetifolia

Casuarina_glauca

 

IOVS

Pseudotsuga wilsoniana

Pseudotsuga_menziesii

 

ZXJO

Parahemionitis arifolia

Hemionitis_arifolia

 

Samples where a different synonym is suggested

 

Current Best Name

Name Used in Files

Comments

 

Current Best Name

Name Used in Files

Comments

DCDT

Gaga arizonica

Cheilanthes_arizonica

 

GSXD

Cheilanthes eatonii

Myriopteris_eatonii

 

VPDX

Euphorbia mesembryanthemifolia

Chamaseyce_mesebyranthemum

 

LSLA

Euphorbia mesembryanthemifolia

Chamaseyce_mesebyranthemum

 

TCBC

Nothoceros vincentianus

Megaceros_vincentianus

 

GDYP

Boerhavia burbidgeana

Boerhavia_dominnii

 

HUGU

Boerhavia burbidgeana

Boerhavia_dominnii

 

Samples with names revised by the plant provider

(Many are taxonomic reclassifications, but some may be changes to taxonomic synonyms)

 

Current Best Name

Name Used in Files

Comments

 

Current Best Name

Name Used in Files

Comments

WTJG

Ophioglossum petiolatum

Ophioglossum_vulgatum

 

ZQYU

Phlebodium pseudoaureum

Polypodium_plectolens

 

JBLI

Bolbitis repanda

Danaea_sp.

 

VBMM

Claopodium rostratum

Anomodon_rostratus

 

ABCD

Racomitrium elongatum

Niphotrichum_elongatum

 

XWHK

Rosulabryum cf. capillare

Funaria

 

YEPO

Physcomitrium sp.

cf._Physcomicromitrium_sp.

 

WSPM

Loeskeobryum brevirostre

Rhytidiadelphus_loreus

 

ZACW

Leucodon brachypus

Leucodon_sciuroides

 

LNSF

Stereodon subimponens

Hypnum_subimponens

 

IGUH

Leucodon julaceus

Schwetschkeopsis_fabronia

 

UCRN

Megaceros flagellaris

Megaceros_tosanus

 

WJLO

Ricciocarpos natans

Riccia_berychiana

 

OPZX

Sesuvium verrucosum

Sessuvium_ventricosum

 

ZJDK

Sesuvium verrucosum

Sessuvium_ventricosum

 

EGOS

Allionia incarnata

Allionia_spp.

 

WHHY

Boerhavia coccinea

Boerhavia_cf._spiderwort

 

MBWM

Boerhavia coccinea

Boerhavia_cf._spiderwort

 

BYNZ

Portulaca umbraticola

Portulaca_mauii

 

JWEY

Heliotropium tenuifolium

Heliotropium_sp.

 

DESP

Erigeron canadensis

Erigeron_speciosus

 

JTRM

Dipsacus asper

Dipsacus_sativum

 

ORJE

Phymatosorus grossus

Cibotium_glaucum

 

ZULJ

Pyropia yezoensis

Porphyra_yezoensis

 

XAXW

Neosiphonia japonica

Polysiphonia_japonica

 

CKXF

Ahnfeltiopsis flabelliformis

Gymnogongrus_ftabelliformis

 

BWVJ

Betaphycus philippinensis

Betaphycus_gelatinae

 

VNAL

Gracilaria vermiculophylla

Gracilaria_asiatica

 

PYDB

Grateloupia catenata

Sinotubimorpha_guangdongensis

 

RAPY

Saccharina sculpera

Kjellmaniella_crassifolia

 

OGZM

Saccharina japonica

Laminaria_japonica

 

QDTV